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Conserved domains on  [gi|118026946|ref|NP_032705|]
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nuclear receptor coactivator 3 isoform 1 [Mus musculus]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bHLH_SF super family cl00081
basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators ...
 33-102 6.40e-45

basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. Members of the bHLH superfamily have two highly conserved and functionally distinct regions. The basic part is at the amino end of the bHLH that may bind DNA to a consensus hexanucleotide sequence known as the E box (CANNTG). Different families of bHLH proteins recognize different E-box consensus sequences. At the carboxyl-terminal end of the region is the HLH region that interacts with other proteins to form homo- and heterodimers. bHLH proteins function as a diverse set of regulatory factors because they recognize different DNA sequences and dimerize with different proteins. The bHLH proteins can be divided to cell-type specific and widely expressed proteins. The cell-type specific members of bHLH superfamily are involved in cell-fate determination and act in neurogenesis, cardiogenesis, myogenesis, and hematopoiesis.


The actual alignment was detected with superfamily member cd18949:

Pssm-ID: 469605  Cd Length: 73  Bit Score: 156.35  E-value: 6.40e-45
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKTISSDDDVQKADVS 102
Cdd:cd18949     4 SGEKRRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKSSSNDDDVQKADVS 73
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 451-564 6.42e-40

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


:

Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 143.72  E-value: 6.42e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   451 YGLSMSSPPHGSPGLGPNQQNIMISPRNRGSPKMASHQFSPAAGAHSPMGP-----SGNTGSHSFSSSSLSALQAISEGV 525
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQQNLMMSPRHRGSPKMPANQFSPGMGLHSPMGSvssggSGGGGSRTYSSSSLNALQAISEGV 80

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 118026946   526 GTSLLSTLSSPGPKLDNSPNMNISQPSKVSGQDSKSPLG 564
Cdd:pfam16665   81 GNSLGSSLTSPVPKQDSSPNINSTQQKKEGSSDSKSPSS 119
DUF4927 pfam16279
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 714-801 9.57e-34

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


:

Pssm-ID: 465083  Cd Length: 87  Bit Score: 124.91  E-value: 9.57e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   714 RQEQLSPKKKENNALLRYLLDRDDPSDVLAKELQPQADSGDSKLSQCSCSTNPSSGQEK-DPKIKTETNEEVSgdLDNLD 792
Cdd:pfam16279    1 KQEQLSPKKKKNNALLRYLLDKDDSKDPLSKDIKPKLEGLDGKTGPCSSSKIPTSKSEKeESKIKTEPPDELS--LDNLD 78


                   ....*....
gi 118026946   793 AILGDLTSS 801
Cdd:pfam16279   79 AILGDLRNS 87
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 608-696 1.14e-27

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


:

Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 107.48  E-value: 1.14e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   608 KGHKKLLQLLTCSSDDRG-HSSLTNSPLDPNCKDSSVSVTSPSGVSSSTSGTVSstsNVHGSLLQEKHRILHKLLQNGNS 686
Cdd:pfam08832    1 KGHKKLLQLLTTPTEQLGpSPLRSHADADTDCKDSLAGVTSPSSGVSSSSGSSC---PSHHSSLQEKHKILHRLLQNGNS 77

                           90
                   ....*....|
gi 118026946   687 PAEVAKITAE 696
Cdd:pfam08832   78 PDDVAKLTAE 87
PAS_11 super family cl37882
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 262-372 2.68e-24

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


The actual alignment was detected with superfamily member pfam14598:

Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 98.91  E-value: 2.68e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   262 ESFITRHDLSGKVVNIDTnslRSSMRPGFED--IIRRCIQRFFSLNDgQSWSQKRHYQEAYVHGHAETPVYRFSLADGTI 339
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD-LRTAKSHLREIIQTRGRATSPSYRLRLRDGDF 77

                           90       100       110
                   ....*....|....*....|....*....|...
gi 118026946   340 VSAQTKSKLFRNPVTNDRHGFISTHFLQREQNG 372
Cdd:pfam14598   78 LSVHTKSKLFLNQNSNQQPFIMCTHTILREENA 110
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 1056-1102 4.56e-20

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


:

Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 84.76  E-value: 4.56e-20
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 118026946  1056 EGQSDERALLDQLHTLLSNTDATGLEEIDRALGIPELVNQGQALESK 1102
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVGQGQGLDPD 47
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1270-1327 1.07e-12

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


:

Pssm-ID: 462174  Cd Length: 58  Bit Score: 64.02  E-value: 1.07e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 118026946  1270 SMDGVLAGSAMPQAPPQQFPYPANYGMGQPPEPAFGRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 117-172 2.55e-11

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


:

Pssm-ID: 214512  Cd Length: 67  Bit Score: 60.49  E-value: 2.55e-11
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*.
gi 118026946    117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLK 172
Cdd:smart00091    5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQE 60
Med15 super family cl26621
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 1094-1395 4.23e-07

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


The actual alignment was detected with superfamily member pfam09606:

Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 54.63  E-value: 4.23e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1094 NQGQALESKQDVFQGQEAAVMMDQKAALygQTYPAQG--PPLQGGFNLQGQSPSFNSM--MGQISQQGSFPLQGMHPRAG 1169
Cdd:pfam09606   59 QQQQPQGGQGNGGMGGGQQGMPDPINAL--QNLAGQGtrPQMMGPMGPGPGGPMGQQMggPGTASNLLASLGRPQMPMGG 136

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1170 LVRPrtntpkqlrmqlqqrlqgqqflNQSRQALEMKMENPAGtAVMRPMMPQQAFF--NAQMAAQQKRELMSHHLQQQRM 1247
Cdd:pfam09606  137 AGFP----------------------SQMSRVGRMQPGGQAG-GMMQPSSGQPGSGtpNQMGPNGGPGQGQAGGMNGGQQ 193

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1248 AMMMSQPQPQAFSPPPNVTASPsmdgvlaGSAMPQAPPQQFPYPANYGMGQPPEPAFgRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam09606  194 GPMGGQMPPQMGVPGMPGPADA-------GAQMGQQAQANGGMNPQQMGGAPNQVAM-QQQQPQQQGQQSQLGMGINQMQ 265

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1328 QHPQPTPMYQPSDMKGWPSG-------------------NLARNGSFPQQQFAPQGNPAAYNMvHMNSSGGHLGQmaMTP 1388
Cdd:pfam09606  266 QMPQGVGGGAGQGGPGQPMGppgqqpgampnvmsigdqnNYQQQQTRQQQQQQGGNHPAAHQQ-QMNQSVGQGGQ--VVA 342


                   ....*..
gi 118026946  1389 MPMSGMP 1395
Cdd:pfam09606  343 LGGLNHL 349
 
Name Accession Description Interval E-value
bHLH-PAS_NCoA3_SRC3 cd18949
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 ...
 33-102 6.40e-45

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 (NCoA-3) and similar proteins; NCoA-3, also termed ACTR, or amplified in breast cancer 1 protein (AIB-1), or CBP-interacting protein (pCIP), or Class E basic helix-loop-helix protein 42 (bHLHe42), or receptor-associated coactivator 3 (RAC-3), or steroid receptor coactivator protein 3 (SRC-3), or thyroid hormone receptor activator molecule 1 (TRAM-1), is a bHLH-PAS steroid/nuclear receptor-associated coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. It also plays a central role in creating a multisubunit coactivator complex, which probably acts via remodeling of chromatin.


Pssm-ID: 381519  Cd Length: 73  Bit Score: 156.35  E-value: 6.40e-45
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKTISSDDDVQKADVS 102
Cdd:cd18949     4 SGEKRRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKSSSNDDDVQKADVS 73
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 451-564 6.42e-40

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 143.72  E-value: 6.42e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   451 YGLSMSSPPHGSPGLGPNQQNIMISPRNRGSPKMASHQFSPAAGAHSPMGP-----SGNTGSHSFSSSSLSALQAISEGV 525
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQQNLMMSPRHRGSPKMPANQFSPGMGLHSPMGSvssggSGGGGSRTYSSSSLNALQAISEGV 80

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 118026946   526 GTSLLSTLSSPGPKLDNSPNMNISQPSKVSGQDSKSPLG 564
Cdd:pfam16665   81 GNSLGSSLTSPVPKQDSSPNINSTQQKKEGSSDSKSPSS 119
DUF4927 pfam16279
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 714-801 9.57e-34

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


Pssm-ID: 465083  Cd Length: 87  Bit Score: 124.91  E-value: 9.57e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   714 RQEQLSPKKKENNALLRYLLDRDDPSDVLAKELQPQADSGDSKLSQCSCSTNPSSGQEK-DPKIKTETNEEVSgdLDNLD 792
Cdd:pfam16279    1 KQEQLSPKKKKNNALLRYLLDKDDSKDPLSKDIKPKLEGLDGKTGPCSSSKIPTSKSEKeESKIKTEPPDELS--LDNLD 78


                   ....*....
gi 118026946   793 AILGDLTSS 801
Cdd:pfam16279   79 AILGDLRNS 87
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 608-696 1.14e-27

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 107.48  E-value: 1.14e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   608 KGHKKLLQLLTCSSDDRG-HSSLTNSPLDPNCKDSSVSVTSPSGVSSSTSGTVSstsNVHGSLLQEKHRILHKLLQNGNS 686
Cdd:pfam08832    1 KGHKKLLQLLTTPTEQLGpSPLRSHADADTDCKDSLAGVTSPSSGVSSSSGSSC---PSHHSSLQEKHKILHRLLQNGNS 77

                           90
                   ....*....|
gi 118026946   687 PAEVAKITAE 696
Cdd:pfam08832   78 PDDVAKLTAE 87
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 262-372 2.68e-24

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 98.91  E-value: 2.68e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   262 ESFITRHDLSGKVVNIDTnslRSSMRPGFED--IIRRCIQRFFSLNDgQSWSQKRHYQEAYVHGHAETPVYRFSLADGTI 339
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD-LRTAKSHLREIIQTRGRATSPSYRLRLRDGDF 77

                           90       100       110
                   ....*....|....*....|....*....|...
gi 118026946   340 VSAQTKSKLFRNPVTNDRHGFISTHFLQREQNG 372
Cdd:pfam14598   78 LSVHTKSKLFLNQNSNQQPFIMCTHTILREENA 110
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 1056-1102 4.56e-20

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 84.76  E-value: 4.56e-20
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 118026946  1056 EGQSDERALLDQLHTLLSNTDATGLEEIDRALGIPELVNQGQALESK 1102
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVGQGQGLDPD 47
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1270-1327 1.07e-12

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 64.02  E-value: 1.07e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 118026946  1270 SMDGVLAGSAMPQAPPQQFPYPANYGMGQPPEPAFGRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 117-172 2.55e-11

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 60.49  E-value: 2.55e-11
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*.
gi 118026946    117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLK 172
Cdd:smart00091    5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQE 60
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 122-208 1.98e-09

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 56.10  E-value: 1.98e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  122 LDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKhlpkstvngvSWTNENQRQKSHTFNCRML 201
Cdd:cd00130     1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRE----------RLENLLSGGEPVTLEVRLR 70


                  ....*..
gi 118026946  202 MKTHDIL 208
Cdd:cd00130    71 RKDGSVI 77
HLH smart00353
helix loop helix domain;
35-89 3.69e-08

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 51.07  E-value: 3.69e-08
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 118026946     35 EKWRREQESKYIEELAELISANlsdidNFNVKPDKCAILKETVRQIRQIKEQGKT 89
Cdd:smart00353    4 ERRRRRKINEAFDELRSLLPTL-----PKNKKLSKAEILRLAIEYIKSLQEELQK 53
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 118-215 2.83e-07

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://0-doi-org.brum.beds.ac.uk/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 50.49  E-value: 2.83e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   118 LLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHLpkstvngvsWTNENQRQKSHTFN 197
Cdd:pfam00989    6 ILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELL---------RQALLQGEESRGFE 76

                           90
                   ....*....|....*....
gi 118026946   198 CRMLMKTHDILE-DVNASP 215
Cdd:pfam00989   77 VSFRVPDGRPRHvEVRASP 95
Med15 pfam09606
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 1094-1395 4.23e-07

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 54.63  E-value: 4.23e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1094 NQGQALESKQDVFQGQEAAVMMDQKAALygQTYPAQG--PPLQGGFNLQGQSPSFNSM--MGQISQQGSFPLQGMHPRAG 1169
Cdd:pfam09606   59 QQQQPQGGQGNGGMGGGQQGMPDPINAL--QNLAGQGtrPQMMGPMGPGPGGPMGQQMggPGTASNLLASLGRPQMPMGG 136

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1170 LVRPrtntpkqlrmqlqqrlqgqqflNQSRQALEMKMENPAGtAVMRPMMPQQAFF--NAQMAAQQKRELMSHHLQQQRM 1247
Cdd:pfam09606  137 AGFP----------------------SQMSRVGRMQPGGQAG-GMMQPSSGQPGSGtpNQMGPNGGPGQGQAGGMNGGQQ 193

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1248 AMMMSQPQPQAFSPPPNVTASPsmdgvlaGSAMPQAPPQQFPYPANYGMGQPPEPAFgRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam09606  194 GPMGGQMPPQMGVPGMPGPADA-------GAQMGQQAQANGGMNPQQMGGAPNQVAM-QQQQPQQQGQQSQLGMGINQMQ 265

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1328 QHPQPTPMYQPSDMKGWPSG-------------------NLARNGSFPQQQFAPQGNPAAYNMvHMNSSGGHLGQmaMTP 1388
Cdd:pfam09606  266 QMPQGVGGGAGQGGPGQPMGppgqqpgampnvmsigdqnNYQQQQTRQQQQQQGGNHPAAHQQ-QMNQSVGQGGQ--VVA 342


                   ....*..
gi 118026946  1389 MPMSGMP 1395
Cdd:pfam09606  343 LGGLNHL 349
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 1233-1401 1.02e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 46.72  E-value: 1.02e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1233 QKRELMSHHLQQQRMammmsQPQPQAFSPPPNVTASPSMDGVLAGSAMP--QAPPQQFPYPANYGMGQPPEPAFGRGSSP 1310
Cdd:TIGR01628  362 QRKEQRRAHLQDQFM-----QLQPRMRQLPMGSPMGGAMGQPPYYGQGPqqQFNGQPLGWPRMSMMPTPMGPGGPLRPNG 436

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1311 PSAMMSSRMGPS--QNAMVQHPQPTPMYQPSdmkgwpsgnlarngsfPQQQFAPQGNPAAynmvhmNSSGGHLGQMAMTP 1388
Cdd:TIGR01628  437 LAPMNAVRAPSRnaQNAAQKPPMQPVMYPPN----------------YQSLPLSQDLPQP------QSTASQGGQNKKLA 494

                          170
                   ....*....|...
gi 118026946  1389 MPMSGMPMGpDQK 1401
Cdd:TIGR01628  495 QVLASATPQ-MQK 506
PAS COG2202
PAS domain [Signal transduction mechanisms];
117-192 8.07e-04

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 43.09  E-value: 8.07e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 118026946  117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHLPKSTVNGVSWTNENQRQK 192
Cdd:COG2202    15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGVWRGELRNRR 90
 
Name Accession Description Interval E-value
bHLH-PAS_NCoA3_SRC3 cd18949
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 ...
 33-102 6.40e-45

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 3 (NCoA-3) and similar proteins; NCoA-3, also termed ACTR, or amplified in breast cancer 1 protein (AIB-1), or CBP-interacting protein (pCIP), or Class E basic helix-loop-helix protein 42 (bHLHe42), or receptor-associated coactivator 3 (RAC-3), or steroid receptor coactivator protein 3 (SRC-3), or thyroid hormone receptor activator molecule 1 (TRAM-1), is a bHLH-PAS steroid/nuclear receptor-associated coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion. It also plays a central role in creating a multisubunit coactivator complex, which probably acts via remodeling of chromatin.


Pssm-ID: 381519  Cd Length: 73  Bit Score: 156.35  E-value: 6.40e-45
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKTISSDDDVQKADVS 102
Cdd:cd18949     4 SGEKRRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKSSSNDDDVQKADVS 73
NCOA_u2 pfam16665
Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively ...
 451-564 6.42e-40

Unstructured region on nuclear receptor coactivator protein; NCOA_u2 is a region of natively unstructured but highly conserved sequence found on higher eukaryote nuclear receptor coactivator proteins. It lies between a PAS domain, pfam14598 and a steroid receptor coactivator domain, pfam08832. The function is not known.


Pssm-ID: 465223 [Multi-domain]  Cd Length: 119  Bit Score: 143.72  E-value: 6.42e-40
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   451 YGLSMSSPPHGSPGLGPNQQNIMISPRNRGSPKMASHQFSPAAGAHSPMGP-----SGNTGSHSFSSSSLSALQAISEGV 525
Cdd:pfam16665    1 YGLNMNSPPQGSPGMTPPQQNLMMSPRHRGSPKMPANQFSPGMGLHSPMGSvssggSGGGGSRTYSSSSLNALQAISEGV 80

                           90       100       110
                   ....*....|....*....|....*....|....*....
gi 118026946   526 GTSLLSTLSSPGPKLDNSPNMNISQPSKVSGQDSKSPLG 564
Cdd:pfam16665   81 GNSLGSSLTSPVPKQDSSPNINSTQQKKEGSSDSKSPSS 119
DUF4927 pfam16279
Domain of unknown function (DUF4927); This family, around 80 residues, consists of ...
 714-801 9.57e-34

Domain of unknown function (DUF4927); This family, around 80 residues, consists of uncharacterized and nuclear receptor coactivator 2 proteins and is mainly found in mammalia species. The specific function of this family is still unknown.


Pssm-ID: 465083  Cd Length: 87  Bit Score: 124.91  E-value: 9.57e-34
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   714 RQEQLSPKKKENNALLRYLLDRDDPSDVLAKELQPQADSGDSKLSQCSCSTNPSSGQEK-DPKIKTETNEEVSgdLDNLD 792
Cdd:pfam16279    1 KQEQLSPKKKKNNALLRYLLDKDDSKDPLSKDIKPKLEGLDGKTGPCSSSKIPTSKSEKeESKIKTEPPDELS--LDNLD 78


                   ....*....
gi 118026946   793 AILGDLTSS 801
Cdd:pfam16279   79 AILGDLRNS 87
bHLH-PAS_SRC cd11439
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in steroid receptor coactivator ...
 33-87 8.42e-31

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in steroid receptor coactivator (SRC) family; The SRC family of coactivators includes SRC-1 (NcoA-1/p160), SRC-2(TIF2/GRIP1/NcoA-2) and SRC-3(NcoA-3/pCIP/RAC3/ACTR/pCIP/AIB1/TRAM1), which are critical mediators of steroid receptor action. They contain bHLH-PAS domain at the N-terminal that is followed by receptor interacting domain and C-terminal transcriptional activation domain. SRC coactivators interact with nuclear receptors in a ligand-dependent manner and enhance transcriptional activation by the receptor via histone acetylation/methylation.


Pssm-ID: 381445  Cd Length: 58  Bit Score: 115.60  E-value: 8.42e-31
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQG 87
Cdd:cd11439     4 LNEKRRREQENKYIEELAELISASISDMDSLSVKPDKCAILQETVKQIRQIKEQE 58
bHLH-PAS_NCoA2_SRC2 cd18950
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 2 ...
 33-89 3.21e-29

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 2 (NCoA-2) and similar proteins; NCoA-2, also termed Class E basic helix-loop-helix protein 75 (bHLHe75), or transcriptional intermediary factor 2 (TIF2), or steroid receptor coactivator 2 (SRC-2), or glucocorticoid receptor interacting protein-1 (GRIP1), is a bHLH-PAS transcriptional coactivator for steroid receptors and nuclear receptors. It is required with NCoA-1 to control energy balance between white and brown adipose tissues.


Pssm-ID: 381520  Cd Length: 64  Bit Score: 111.32  E-value: 3.21e-29
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIKEQGKT 89
Cdd:cd18950     6 STEKRNREQENKYIEELAELIFANFNDIDNFNVKPDKCAILKETVKQIRQIKEQEKA 62
SRC-1 pfam08832
Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators ...
 608-696 1.14e-27

Steroid receptor coactivator; This domain is found in steroid/nuclear receptor coactivators and contains two LXXLL motifs that are involved in receptor binding. The family includes SRC-1/NcoA-1, NcoA-2/TIF2, pCIP/ACTR/GRIP-1/AIB1.


Pssm-ID: 462615 [Multi-domain]  Cd Length: 87  Bit Score: 107.48  E-value: 1.14e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   608 KGHKKLLQLLTCSSDDRG-HSSLTNSPLDPNCKDSSVSVTSPSGVSSSTSGTVSstsNVHGSLLQEKHRILHKLLQNGNS 686
Cdd:pfam08832    1 KGHKKLLQLLTTPTEQLGpSPLRSHADADTDCKDSLAGVTSPSSGVSSSSGSSC---PSHHSSLQEKHKILHRLLQNGNS 77

                           90
                   ....*....|
gi 118026946   687 PAEVAKITAE 696
Cdd:pfam08832   78 PDDVAKLTAE 87
PAS_11 pfam14598
PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), ...
 262-372 2.68e-24

PAS domain; This family includes the PAS-B domain of NCOA1 (Nuclear receptor coactivator 1), which binds to an LXXLL motif in the C-terminal region of STAT6 (Signal transducer and activator of transcription 6).


Pssm-ID: 464214 [Multi-domain]  Cd Length: 110  Bit Score: 98.91  E-value: 2.68e-24
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   262 ESFITRHDLSGKVVNIDTnslRSSMRPGFED--IIRRCIQRFFSLNDgQSWSQKRHYQEAYVHGHAETPVYRFSLADGTI 339
Cdd:pfam14598    2 EQFTTRHDIDGKIISCDT---RAPFSLGYEKdeLVGRSIYDLVHPQD-LRTAKSHLREIIQTRGRATSPSYRLRLRDGDF 77

                           90       100       110
                   ....*....|....*....|....*....|...
gi 118026946   340 VSAQTKSKLFRNPVTNDRHGFISTHFLQREQNG 372
Cdd:pfam14598   78 LSVHTKSKLFLNQNSNQQPFIMCTHTILREENA 110
bHLH-PAS_NCoA1_SRC1 cd18948
basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 ...
 33-88 7.73e-24

basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain found in nuclear receptor coactivator 1 (NCoA-1) and similar proteins; NCoA-1, also termed Class E basic helix-loop-helix protein 74 (bHLHe74), or protein Hin-2, or RIP160, or renal carcinoma antigen NY-REN-52, or steroid receptor coactivator 1 (SRC-1), is a bHLH-PAS nuclear receptor coactivator that directly binds nuclear receptors and stimulates the transcriptional activities in a hormone-dependent fashion.


Pssm-ID: 381518  Cd Length: 61  Bit Score: 95.81  E-value: 7.73e-24
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 118026946   33 SGEKWRREQESKYIEELAELISANLSDIDNFNVKPDKCAILKETVRQIRQIK--EQGK 88
Cdd:cd18948     4 STEKRRREQENKYLEELAELLSANIGDIDSLSVKPDKCKILKKTVDQIQQMKrlEQEK 61
Nuc_rec_co-act pfam08815
Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators ...
 1056-1102 4.56e-20

Nuclear receptor coactivator; This region is found on eukaryotic nuclear receptor coactivators and forms an alpha helical structure.


Pssm-ID: 462608 [Multi-domain]  Cd Length: 47  Bit Score: 84.76  E-value: 4.56e-20
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*..
gi 118026946  1056 EGQSDERALLDQLHTLLSNTDATGLEEIDRALGIPELVNQGQALESK 1102
Cdd:pfam08815    1 EGPSDEGALLDQLVSFLSNTDETGLEEIDRALGIPELVGQGQGLDPD 47
DUF1518 pfam07469
Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually ...
 1270-1327 1.07e-12

Nuclear receptor coactivator, DUF1518; This conserved domain of unknown function is usually found tandemly repeated in the nuclear receptor coactivator family (NCOA1/2/3, also known as the SRC/p160 nuclear receptor coactivator family, which are ligand-dependent transcription factors.


Pssm-ID: 462174  Cd Length: 58  Bit Score: 64.02  E-value: 1.07e-12
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 118026946  1270 SMDGVLAGSAMPQAPPQQFPYPANYGMGQPPEPAFGRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam07469    1 GMGGQFGGPRNPQAQPQQFPYPPNYGMSQQPDPAFTSALSPQSPMMSPRMGPSQSPMM 58
PAS smart00091
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 117-172 2.55e-11

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels.


Pssm-ID: 214512  Cd Length: 67  Bit Score: 60.49  E-value: 2.55e-11
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*.
gi 118026946    117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLK 172
Cdd:smart00091    5 AILESLPDGIFVLDLDGRILYANPAAEELLGYSPEELIGKSLLELIHPEDRERVQE 60
PAS cd00130
PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising ...
 122-208 1.98e-09

PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in signal transduction.


Pssm-ID: 238075 [Multi-domain]  Cd Length: 103  Bit Score: 56.10  E-value: 1.98e-09
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  122 LDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKhlpkstvngvSWTNENQRQKSHTFNCRML 201
Cdd:cd00130     1 LPDGVIVLDLDGRILYANPAAEQLLGYSPEELIGKSLLDLIHPEDREELRE----------RLENLLSGGEPVTLEVRLR 70


                  ....*..
gi 118026946  202 MKTHDIL 208
Cdd:cd00130    71 RKDGSVI 77
HLH smart00353
helix loop helix domain;
35-89 3.69e-08

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 51.07  E-value: 3.69e-08
                            10        20        30        40        50
                    ....*....|....*....|....*....|....*....|....*....|....*
gi 118026946     35 EKWRREQESKYIEELAELISANlsdidNFNVKPDKCAILKETVRQIRQIKEQGKT 89
Cdd:smart00353    4 ERRRRRKINEAFDELRSLLPTL-----PKNKKLSKAEILRLAIEYIKSLQEELQK 53
PAS pfam00989
PAS fold; The PAS fold corresponds to the structural domain that has previously been defined ...
 118-215 2.83e-07

PAS fold; The PAS fold corresponds to the structural domain that has previously been defined as PAS and PAC motifs. The PAS fold appears in archaea, eubacteria and eukarya. This domain can bind gases (O2, CO and NO), FAD, 4-hydroxycinnamic acid and NAD+ (Matilla et.al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://0-doi-org.brum.beds.ac.uk/10.1093/femsre/fuab043).


Pssm-ID: 395786 [Multi-domain]  Cd Length: 113  Bit Score: 50.49  E-value: 2.83e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946   118 LLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHLpkstvngvsWTNENQRQKSHTFN 197
Cdd:pfam00989    6 ILESLPDGIFVVDEDGRILYVNAAAEELLGLSREEVIGKSLLDLIPEEDDAEVAELL---------RQALLQGEESRGFE 76

                           90
                   ....*....|....*....
gi 118026946   198 CRMLMKTHDILE-DVNASP 215
Cdd:pfam00989   77 VSFRVPDGRPRHvEVRASP 95
Med15 pfam09606
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 1094-1395 4.23e-07

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 54.63  E-value: 4.23e-07
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1094 NQGQALESKQDVFQGQEAAVMMDQKAALygQTYPAQG--PPLQGGFNLQGQSPSFNSM--MGQISQQGSFPLQGMHPRAG 1169
Cdd:pfam09606   59 QQQQPQGGQGNGGMGGGQQGMPDPINAL--QNLAGQGtrPQMMGPMGPGPGGPMGQQMggPGTASNLLASLGRPQMPMGG 136

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1170 LVRPrtntpkqlrmqlqqrlqgqqflNQSRQALEMKMENPAGtAVMRPMMPQQAFF--NAQMAAQQKRELMSHHLQQQRM 1247
Cdd:pfam09606  137 AGFP----------------------SQMSRVGRMQPGGQAG-GMMQPSSGQPGSGtpNQMGPNGGPGQGQAGGMNGGQQ 193

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1248 AMMMSQPQPQAFSPPPNVTASPsmdgvlaGSAMPQAPPQQFPYPANYGMGQPPEPAFgRGSSPPSAMMSSRMGPSQNAMV 1327
Cdd:pfam09606  194 GPMGGQMPPQMGVPGMPGPADA-------GAQMGQQAQANGGMNPQQMGGAPNQVAM-QQQQPQQQGQQSQLGMGINQMQ 265

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1328 QHPQPTPMYQPSDMKGWPSG-------------------NLARNGSFPQQQFAPQGNPAAYNMvHMNSSGGHLGQmaMTP 1388
Cdd:pfam09606  266 QMPQGVGGGAGQGGPGQPMGppgqqpgampnvmsigdqnNYQQQQTRQQQQQQGGNHPAAHQQ-QMNQSVGQGGQ--VVA 342


                   ....*..
gi 118026946  1389 MPMSGMP 1395
Cdd:pfam09606  343 LGGLNHL 349
bHLH_SF cd00083
basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators ...
 35-85 3.63e-06

basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. Members of the bHLH superfamily have two highly conserved and functionally distinct regions. The basic part is at the amino end of the bHLH that may bind DNA to a consensus hexanucleotide sequence known as the E box (CANNTG). Different families of bHLH proteins recognize different E-box consensus sequences. At the carboxyl-terminal end of the region is the HLH region that interacts with other proteins to form homo- and heterodimers. bHLH proteins function as a diverse set of regulatory factors because they recognize different DNA sequences and dimerize with different proteins. The bHLH proteins can be divided to cell-type specific and widely expressed proteins. The cell-type specific members of bHLH superfamily are involved in cell-fate determination and act in neurogenesis, cardiogenesis, myogenesis, and hematopoiesis.


Pssm-ID: 381392 [Multi-domain]  Cd Length: 46  Bit Score: 45.20  E-value: 3.63e-06
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|.
gi 118026946   35 EKWRREQESKYIEELAELISaNLSDIDnfnvKPDKCAILKETVRQIRQIKE 85
Cdd:cd00083     1 ERRRRDKINDAFEELKRLLP-ELPDSK----KLSKASILQKAVEYIRELQS 46
PAT1 pfam09770
Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate ...
 1209-1395 4.94e-06

Topoisomerase II-associated protein PAT1; Members of this family are necessary for accurate chromosome transmission during cell division.


Pssm-ID: 401645 [Multi-domain]  Cd Length: 846  Bit Score: 51.19  E-value: 4.94e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1209 PAGTAVMRPMMPQQAFFNAQMAaQQKRELMShhLQQQRmAMMMSQPQPQAFSPPPNVTASPSMDGVLAGSAMPQAPPQQF 1288
Cdd:pfam09770  166 APKKAAAPAPAPQPAAQPASLP-APSRKMMS--LEEVE-AAMRAQAKKPAQQPAPAPAQPPAAPPAQQAQQQQQFPPQIQ 241

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1289 PYPANYGMGQPPEPAFGRGS--------SPPSAMMSSRMGPSQNAMVQHPQPTPMYQPSDMKGWPS-GNLARNGSFPQQQ 1359
Cdd:pfam09770  242 QQQQPQQQPQQPQQHPGQGHpvtilqrpQSPQPDPAQPSIQPQAQQFHQQPPPVPVQPTQILQNPNrLSAARVGYPQNPQ 321

                          170       180       190
                   ....*....|....*....|....*....|....*.
gi 118026946  1360 FAPQGNPAAYnMVHMNSSGGHLGQMAMTPMPMSGMP 1395
Cdd:pfam09770  322 PGVQPAPAHQ-AHRQQGSFGRQAPIITHPQQLAQLS 356
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 1233-1401 1.02e-04

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 46.72  E-value: 1.02e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1233 QKRELMSHHLQQQRMammmsQPQPQAFSPPPNVTASPSMDGVLAGSAMP--QAPPQQFPYPANYGMGQPPEPAFGRGSSP 1310
Cdd:TIGR01628  362 QRKEQRRAHLQDQFM-----QLQPRMRQLPMGSPMGGAMGQPPYYGQGPqqQFNGQPLGWPRMSMMPTPMGPGGPLRPNG 436

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1311 PSAMMSSRMGPS--QNAMVQHPQPTPMYQPSdmkgwpsgnlarngsfPQQQFAPQGNPAAynmvhmNSSGGHLGQMAMTP 1388
Cdd:TIGR01628  437 LAPMNAVRAPSRnaQNAAQKPPMQPVMYPPN----------------YQSLPLSQDLPQP------QSTASQGGQNKKLA 494

                          170
                   ....*....|...
gi 118026946  1389 MPMSGMPMGpDQK 1401
Cdd:TIGR01628  495 QVLASATPQ-MQK 506
Med15 pfam09606
ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of ...
 1130-1398 1.14e-04

ARC105 or Med15 subunit of Mediator complex non-fungal; The approx. 70 residue Med15 domain of the ARC-Mediator co-activator is a three-helix bundle with marked similarity to the KIX domain. The sterol regulatory element binding protein (SREBP) family of transcription activators use the ARC105 subunit to activate target genes in the regulation of cholesterol and fatty acid homeostasis. In addition, Med15 is a critical transducer of gene activation signals that control early metazoan development.


Pssm-ID: 312941 [Multi-domain]  Cd Length: 732  Bit Score: 46.54  E-value: 1.14e-04
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1130 GPPLQGGFNLQGQSPSFNS--MMGQISQQGSFPLQGMHPRAGLVRPRTNTPKQLRMQLQqrlqgqqflnQSRQALEMKME 1207
Cdd:pfam09606  138 GFPSQMSRVGRMQPGGQAGgmMQPSSGQPGSGTPNQMGPNGGPGQGQAGGMNGGQQGPM----------GGQMPPQMGVP 207

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1208 NPAGTAVMRPMMPQQAFFNAQMAAQQKRELMSHHLQQQRMAMM-MSQPQPQAFSPPPNVTASPSMDGVLAG-SAMPQAPP 1285
Cdd:pfam09606  208 GMPGPADAGAQMGQQAQANGGMNPQQMGGAPNQVAMQQQQPQQqGQQSQLGMGINQMQQMPQGVGGGAGQGgPGQPMGPP 287

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1286 QQFP--YPANYGMGQPPEPAFGRGSSPPSAMMSSRMGPSQNAMVQHPQPTPMYQPSDMKGWPSGNLARNGSFPQQQFAPQ 1363
Cdd:pfam09606  288 GQQPgaMPNVMSIGDQNNYQQQQTRQQQQQQGGNHPAAHQQQMNQSVGQGGQVVALGGLNHLETWNPGNFGGLGANPMQR 367

                          250       260       270
                   ....*....|....*....|....*....|....*...
gi 118026946  1364 GNPaayNMVHMNSSGGHLGQMAMTP---MPMSGMPMGP 1398
Cdd:pfam09606  368 GQP---GMMSSPSPVPGQQVRQVTPnqfMRQSPQPSVP 402
PAS COG2202
PAS domain [Signal transduction mechanisms];
117-192 8.07e-04

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 43.09  E-value: 8.07e-04
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 118026946  117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHLPKSTVNGVSWTNENQRQK 192
Cdd:COG2202    15 ALVESSPDAIIITDLDGRILYVNPAFERLTGYSAEELLGKTLRDLLPPEDDDEFLELLRAALAGGGVWRGELRNRR 90
PAS COG2202
PAS domain [Signal transduction mechanisms];
117-174 1.05e-03

PAS domain [Signal transduction mechanisms];


Pssm-ID: 441804 [Multi-domain]  Cd Length: 258  Bit Score: 42.70  E-value: 1.05e-03
                          10        20        30        40        50
                  ....*....|....*....|....*....|....*....|....*....|....*...
gi 118026946  117 LLLQALDGFLFVVNRDGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHL 174
Cdd:COG2202   141 LLVENAPDGIFVLDLDGRILYVNPAAEELLGYSPEELLGKSLLDLLHPEDRERLLELL 198
PABP-1234 TIGR01628
polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins ...
 1196-1302 8.21e-03

polyadenylate binding protein, human types 1, 2, 3, 4 family; These eukaryotic proteins recognize the poly-A of mRNA and consists of four tandem RNA recognition domains at the N-terminus (rrm: pfam00076) followed by a PABP-specific domain (pfam00658) at the C-terminus. The protein is involved in the transport of mRNA's from the nucleus to the cytoplasm. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed and of unknown tissue range.


Pssm-ID: 130689 [Multi-domain]  Cd Length: 562  Bit Score: 40.56  E-value: 8.21e-03
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 118026946  1196 NQSR-QALEMKMENPAGTAVMRPMMPQQAffNAQMAAQQKrelMSHHLQQQRMAMMMSQPQPQAFSPPPNV-TASPSMDG 1273
Cdd:TIGR01628  376 MQLQpRMRQLPMGSPMGGAMGQPPYYGQG--PQQQFNGQP---LGWPRMSMMPTPMGPGGPLRPNGLAPMNaVRAPSRNA 450

                           90       100
                   ....*....|....*....|....*....
gi 118026946  1274 VlagSAMPQAPPQQFPYPANYGMGQPPEP 1302
Cdd:TIGR01628  451 Q---NAAQKPPMQPVMYPPNYQSLPLSQD 476
PAS_9 pfam13426
PAS domain; This domain is found in many signalling proteins in which it functions as a sensor ...
 132-174 8.27e-03

PAS domain; This domain is found in many signalling proteins in which it functions as a sensor domain. It recognizes FMN, Zn(II), FAD and riboflavin (MAtilla et. al., FEMS Microbiology Reviews, fuab043, 45, 2021, 1. https://0-doi-org.brum.beds.ac.uk/10.1093/femsre/fuab043).


Pssm-ID: 463873 [Multi-domain]  Cd Length: 93  Bit Score: 37.06  E-value: 8.27e-03
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|...
gi 118026946   132 DGNIVFVSENVTQYLQYKQEDLVNTSVYSILHEQDRKDFLKHL 174
Cdd:pfam13426    1 DGRIIYVNDAALRLLGYTREELLGKSITDLFAEPEDSERLREA 43
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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