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Conserved domains on  [gi|61676093|ref|NP_001013417|]
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cyclin-C isoform b [Homo sapiens]

Protein Classification

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 69-160 2.71e-59

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


:

Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 180.51  E-value: 2.71e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKILEIIRV 148
Cdd:cd20514   1 HPYRPLTQYVQDAGLDDELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAELNVDMDKILEITRE 80

                        90
                ....*....|..
gi 61676093 149 ILKLYEQWKNFD 160
Cdd:cd20514  81 ILSLYELWKTFD 92
CYCLIN_SF super family cl40454
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 1-61 2.66e-22

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


The actual alignment was detected with superfamily member cd20513:

Pssm-ID: 477360 [Multi-domain]  Cd Length: 101  Bit Score: 86.49  E-value: 2.66e-22
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 61676093   1 MAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTRFSYafpkEFPYRMNHILECEFYLLELM 61
Cdd:cd20513  47 VAPTCLYLASKVEEC--PSHARLIVAEAKVLKTKFSY----EFPYRVNDILECEFYLLEAL 101
 
Name Accession Description Interval E-value
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 69-160 2.71e-59

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 180.51  E-value: 2.71e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKILEIIRV 148
Cdd:cd20514   1 HPYRPLTQYVQDAGLDDELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAELNVDMDKILEITRE 80

                        90
                ....*....|..
gi 61676093 149 ILKLYEQWKNFD 160
Cdd:cd20514  81 ILSLYELWKTFD 92
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 4-184 5.72e-24

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 95.95  E-value: 5.72e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093   4 TCVFLASKVEEFGVVSNTRLIAAATsvLKTRFSYAFPKEfpyrmnhILECEFYLLELMDCCLIVYHPYRPLLQYVQDmGQ 83
Cdd:COG5333  93 TCVYLACKVEDTPRDISIESFEARD--LWSEEPKSSRER-------ILEYEFELLEALDFDLHVHHPYKYLEGFLKD-LQ 162

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  84 EDM---LLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKD--ARQWFAELSVDMEKILEIIRVILKLYE---- 154
Cdd:COG5333 163 EKDkykLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPiiKLLDFVSYETKEEVIALNYKSIVKNKIktfk 242

                       170       180       190
                ....*....|....*....|....*....|.
gi 61676093 155 -QWKNFDERKEMATILSKMPKPKPPPNSEGE 184
Cdd:COG5333 243 aEHLSRDLPFTLQNIAEPQFALDKKPKSEEE 273
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 1-61 2.66e-22

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 86.49  E-value: 2.66e-22
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 61676093   1 MAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTRFSYafpkEFPYRMNHILECEFYLLELM 61
Cdd:cd20513  47 VAPTCLYLASKVEEC--PSHARLIVAEAKVLKTKFSY----EFPYRVNDILECEFYLLEAL 101
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 4-172 3.76e-14

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 69.09  E-value: 3.76e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093     4 TCVFLASKVEEFGVVSNtrliaaatsvlktRFSYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQD--- 80
Cdd:TIGR00569 106 TCVFLACKVEEFNVSID-------------QFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDikt 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093    81 ----MGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIAL-ACLHVACVVQQKDARQWFAELSV-----DMEKILEI---IR 147
Cdd:TIGR00569 173 rlpgLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALaAILHTASRAGLNMESYLTEQLSVpgnreELPQLIDImreLR 252

                         170       180
                  ....*....|....*....|....*
gi 61676093   148 VILKLYEQwknfDERKEMATILSKM 172
Cdd:TIGR00569 253 ILVKKYEE----PRSEKVAALKKKL 273
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 69-157 6.07e-12

Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family corresponds with the C-terminal domain of some cyclins including cyclin C and cyclin H.


Pssm-ID: 465303  Cd Length: 98  Bit Score: 59.47  E-value: 6.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093    69 HPYRPLLQYVQDMGQE--------DMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACvvqQKDARQWFAE---LSV 137
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRpplledriESLYKRAREILKSALLTDAYFLYTPSQIALAALLLAD---SPLAEFYLTEkfgLPE 77

                          90       100
                  ....*....|....*....|.
gi 61676093   138 DMEKILE-IIRVILKLYEQWK 157
Cdd:pfam16899  78 DRETKLEkLLDTIESCRNLLK 98
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 76-151 6.10e-06

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 42.96  E-value: 6.10e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093     76 QYVQDMGQEDML----LPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDArqWFAELSV-----DMEKILEII 146
Cdd:smart00385   1 DFLRRVCKALNLdpetLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPP--WTKELVHytgyfTEEEILRME 78


                   ....*
gi 61676093    147 RVILK 151
Cdd:smart00385  79 RLLLE 83
 
Name Accession Description Interval E-value
CYCLIN_CCNC_rpt2 cd20514
second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 69-160 2.71e-59

second cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410218 [Multi-domain]  Cd Length: 92  Bit Score: 180.51  E-value: 2.71e-59
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKILEIIRV 148
Cdd:cd20514   1 HPYRPLTQYVQDAGLDDELLPLAWRIVNDSYRTDVCLLYPPYLIALACLHMACVLLQKDARQWFAELNVDMDKILEITRE 80

                        90
                ....*....|..
gi 61676093 149 ILKLYEQWKNFD 160
Cdd:cd20514  81 ILSLYELWKTFD 92
CYCLIN_AtCycC_rpt2 cd20572
second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; ...
 69-163 2.63e-35

second cyclin box found in Arabidopsis thaliana C-type cyclins (CycCs) and similar proteins; CycCs are the cognate cyclin partners of cyclin-dependent kinase CDK8. They may be involved in cell cycle control. CycCs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410275 [Multi-domain]  Cd Length: 102  Bit Score: 119.88  E-value: 2.63e-35
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDMLlPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAELSVDMEKILEIIRV 148
Cdd:cd20572   1 HPYRPLIQLLQDAGLTDMT-QFTWSIVNDTYRTDLILIHPPYMIALACIYIASVHKEKDITLWFEELRVDMNIIKNIAME 79

                        90
                ....*....|....*
gi 61676093 149 ILKLYEQWKNFDERK 163
Cdd:cd20572  80 ILDFYDNYRLIPEER 94
CCL1 COG5333
Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision ...
 4-184 5.72e-24

Cdk activating kinase (CAK)/RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH/TFIIK, cyclin H subunit [Cell division and chromosome partitioning / Transcription / DNA replication, recombination, and repair];


Pssm-ID: 227640 [Multi-domain]  Cd Length: 297  Bit Score: 95.95  E-value: 5.72e-24
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093   4 TCVFLASKVEEFGVVSNTRLIAAATsvLKTRFSYAFPKEfpyrmnhILECEFYLLELMDCCLIVYHPYRPLLQYVQDmGQ 83
Cdd:COG5333  93 TCVYLACKVEDTPRDISIESFEARD--LWSEEPKSSRER-------ILEYEFELLEALDFDLHVHHPYKYLEGFLKD-LQ 162

                        90       100       110       120       130       140       150       160
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  84 EDM---LLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKD--ARQWFAELSVDMEKILEIIRVILKLYE---- 154
Cdd:COG5333 163 EKDkykLLQIAWKIINDALRTDLCLLYPPHIIALAALLIACEVLGMPiiKLLDFVSYETKEEVIALNYKSIVKNKIktfk 242

                       170       180       190
                ....*....|....*....|....*....|.
gi 61676093 155 -QWKNFDERKEMATILSKMPKPKPPPNSEGE 184
Cdd:COG5333 243 aEHLSRDLPFTLQNIAEPQFALDKKPKSEEE 273
CYCLIN_CCNC_rpt1 cd20513
first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or ...
 1-61 2.66e-22

first cyclin box found in cyclin-C (CCNC) and similar proteins; CCNC, also termed CycC, or SRB11, is a component of the Mediator complex, a coactivator involved in regulated gene transcription of nearly all RNA polymerase II-dependent genes. It mediates stress-induced mitochondrial fission and apoptosis. CCNC contains two cyclin boxes. This model corresponds to the first one. The cyclin box is a protein binding domain.


Pssm-ID: 410217 [Multi-domain]  Cd Length: 101  Bit Score: 86.49  E-value: 2.66e-22
                        10        20        30        40        50        60
                ....*....|....*....|....*....|....*....|....*....|....*....|.
gi 61676093   1 MAPTCVFLASKVEEFgvVSNTRLIAAATSVLKTRFSYafpkEFPYRMNHILECEFYLLELM 61
Cdd:cd20513  47 VAPTCLYLASKVEEC--PSHARLIVAEAKVLKTKFSY----EFPYRVNDILECEFYLLEAL 101
CYCLIN_SpCG1C_ScCTK2-like_rpt2 cd20546
second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces ...
 69-155 6.49e-21

second cyclin box found in Schizosaccharomyces pombe cyclin C homolog 1 (pch1), Saccharomyces cerevisiae CTD kinase subunit 2 (ScCTK2), and similar proteins; Cyclin pch1 is essential for progression through the whole cell cycle. It is a homolog of cyclin T; it forms a heterodimer with its partner kinase, cyclin-dependent kinase 9 (CDK9), that can phosphorylate both the pol II C-terminal domain (CTD) and the CTD of transcription elongation factor Spt5. Yeast Cdk9/Pch1, with mRNA capping enzyme Pct1, may also form an elongation checkpoint for mRNA quality control. CTK2, also called CTD kinase subunit beta, CTDK-I subunit beta, or CTD kinase 38 kDa subunit, is the cyclin subunit of the CTDK-I complex, which hyperphosphorylates the C-terminal heptapeptide repeat domain (CTD) of the largest RNA polymerase II subunit. This group also includes yeast RNA polymerase II holoenzyme cyclin-like subunit, a component of the SRB8-11 complex, a regulatory module of the Mediator complex which is involved in regulation of basal and activated RNA polymerase II-dependent transcription. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410249 [Multi-domain]  Cd Length: 97  Bit Score: 82.80  E-value: 6.49e-21
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDM--LLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDA--------RQWFAELSVD 138
Cdd:cd20546   1 HPYQYLIKFAKKLGVSDPkeLAQLAWAFLNDSYRTPLCLLYPPHVIAAAAIYLAAKLLGIDLelspneklNEWWELFGVD 80

                        90
                ....*....|....*..
gi 61676093 139 MEKILEIIRVILKLYEQ 155
Cdd:cd20546  81 EEEIADAINEILDLYSS 97
CYCLIN_CCNL_rpt2 cd20533
second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 ...
 69-153 1.27e-16

second cyclin box found in cyclin-L (CCNL) family; The CCNL family includes two cyclins, CCNL1 and CCNL2. CCNL1 is involved in regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL2 is a novel RNA polymerase II-associated cyclin involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410236 [Multi-domain]  Cd Length: 92  Bit Score: 71.48  E-value: 1.27e-16
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQED--MLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVA---CVVQQKDARQWFAELSVDMEKIL 143
Cdd:cd20533   1 HPHKFILMYLQVLEGEDnkKLAQTAWNYMNDSLRTDLCVRYPPEVIACACIYLAareLGIPLPLPPPWWELFDVSKEDIE 80

                        90
                ....*....|
gi 61676093 144 EIIRVILKLY 153
Cdd:cd20533  81 EICLTILELY 90
CYCLIN_CCNH_rpt2 cd20525
second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called ...
 68-172 3.04e-15

second cyclin box found in cyclin-H (CCNH) and similar proteins; CCNH, also called MO15-associated protein, p34, or p37, is normally associated with the cyclin-dependent kinase cdk7, the catalytic subunit of the CDK-activating kinase (CAK) enzymatic complex. CCNH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410229  Cd Length: 126  Bit Score: 68.86  E-value: 3.04e-15
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  68 YHPYRPL------LQYVQDMGQEDMLLPL---AWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAEL--- 135
Cdd:cd20525   1 HHPYRPLegflldLKTRLPDLKAENLEKLykeAREFLNRSLLTDAPLLYPPSQIALAALLLAASEAGIDVEEYLSEKlpg 80

                        90       100       110       120
                ....*....|....*....|....*....|....*....|
gi 61676093 136 ---SVDMEKILEIIRVILKLYEQWKNFDERKEMATILSKM 172
Cdd:cd20525  81 seeSEELEKLLEIIREIKKLVKKYEGPPDKEEVKALDKKL 120
ccl1 TIGR00569
cyclin ccl1; All proteins in this family for which functions are known are cyclins that are ...
 4-172 3.76e-14

cyclin ccl1; All proteins in this family for which functions are known are cyclins that are components of TFIIH, a complex that is involved in nucleotide excision repair and transcription initiation. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, StanfordUniversity). [DNA metabolism, DNA replication, recombination, and repair]


Pssm-ID: 129660 [Multi-domain]  Cd Length: 305  Bit Score: 69.09  E-value: 3.76e-14
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093     4 TCVFLASKVEEFGVVSNtrliaaatsvlktRFSYAFPKEFPYRMNHILECEFYLLELMDCCLIVYHPYRPLLQYVQD--- 80
Cdd:TIGR00569 106 TCVFLACKVEEFNVSID-------------QFVGNLKETPLKALEQVLEYELLLIQQLNFHLIVHNPYRPLEGFLIDikt 172

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093    81 ----MGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIAL-ACLHVACVVQQKDARQWFAELSV-----DMEKILEI---IR 147
Cdd:TIGR00569 173 rlpgLENPEYLRKHADKFLNRTLLTDAYLLYTPSQIALaAILHTASRAGLNMESYLTEQLSVpgnreELPQLIDImreLR 252

                         170       180
                  ....*....|....*....|....*
gi 61676093   148 VILKLYEQwknfDERKEMATILSKM 172
Cdd:TIGR00569 253 ILVKKYEE----PRSEKVAALKKKL 273
Cyclin_C_2 pfam16899
Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family ...
 69-157 6.07e-12

Cyclin C-terminal domain; Cyclins contain two domains of similar all-alpha fold, this family corresponds with the C-terminal domain of some cyclins including cyclin C and cyclin H.


Pssm-ID: 465303  Cd Length: 98  Bit Score: 59.47  E-value: 6.07e-12
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093    69 HPYRPLLQYVQDMGQE--------DMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACvvqQKDARQWFAE---LSV 137
Cdd:pfam16899   1 HPFRPLEGFLLDLKTRpplledriESLYKRAREILKSALLTDAYFLYTPSQIALAALLLAD---SPLAEFYLTEkfgLPE 77

                          90       100
                  ....*....|....*....|.
gi 61676093   138 DMEKILE-IIRVILKLYEQWK 157
Cdd:pfam16899  78 DRETKLEkLLDTIESCRNLLK 98
CYCLIN_AcCycT_rpt2 cd20588
second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; ...
 68-154 8.78e-12

second cyclin box found in Arabidopsis thaliana T-type cyclins (CycTs) and similar proteins; CycTs associate with their partner cyclin-dependent kinases (CDKs) to trigger their kinase activity. CycTs show high sequence similarity with metazoan cyclin-K (CCNK). CycTs contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410291 [Multi-domain]  Cd Length: 93  Bit Score: 58.70  E-value: 8.78e-12
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  68 YHPYRPLLQYVQD-MGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQ----QKDARQ-WFAELSVDMEK 141
Cdd:cd20588   1 EHPYKPLVAAIKKfNVAQNALAQAAWNFVNDGLRTSLCLQFKPHHIAAGAIFLAAKFLkvklPCDGRKvWWQEFDVTPRQ 80

                        90
                ....*....|...
gi 61676093 142 ILEIIRVILKLYE 154
Cdd:cd20588  81 LEEVSNQMLELYE 93
CYCLIN_CCNM_CCNQ_rpt2 cd20535
second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ...
 69-155 2.28e-11

second cyclin box found in cyclin-M (CCNM) family; The CCNM family proteins, also called ancient conserved domain proteins (ACDPs), are evolutionarily conserved Mg2+ transporters. CCNM, also called cyclin-Q (CCNQ), or CDK10-activating cyclin, or cyclin-related protein FAM58A, associates with CDK10 to promote its kinase activity. Members of this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410238 [Multi-domain]  Cd Length: 104  Bit Score: 58.04  E-value: 2.28e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQ------DMGQED--MLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVA---CVVQQK----DARQWFA 133
Cdd:cd20535   1 LPHKYLLHYLKslrdwlNPEFWSrsPIAKTAWSLLRDFYHSPLCLQFKPQHIALAVIYLAlqvYGVKVPpeeeAEKPWWQ 80

                        90       100
                ....*....|....*....|....
gi 61676093 134 ELS--VDMEKILEIIRVILKLYEQ 155
Cdd:cd20535  81 AFCedLTKETIDEIIEDIINVYDL 104
CYCLIN_CCNK_rpt2 cd20531
second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA ...
 68-153 3.84e-11

second cyclin box found in cyclin-K (CCNK) and similar proteins; CCNK is a novel RNA polymerase II-associated C-type cyclin possessing both carboxy-terminal domain kinase and Cdk-activating kinase activity. It is a regulatory subunit of cyclin-dependent kinases that mediates the activation of these target kinases. It plays a role in transcriptional regulation by controlling the phosphorylation of the C-terminal domain (CTD) of the large subunit of RNA polymerase II (POLR2A). CCNK contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410234 [Multi-domain]  Cd Length: 101  Bit Score: 57.35  E-value: 3.84e-11
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  68 YHPYRPLLQYVQ----DMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKD---------ARQWFAE 134
Cdd:cd20531   1 EHPYKYLLKYAKqlkgDKNKIQKLVQMAWTFVNDSLCTTLCLQWEPEIIAVALMYLAAKLSKFDlqdwtskppGKRWWEQ 80

                        90       100
                ....*....|....*....|.
gi 61676093 135 LSVD--MEKILEIIRVILKLY 153
Cdd:cd20531  81 FVEDvsLEVLEDICHQVLDLY 101
CYCLIN_CCNL1_rpt2 cd20592
second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin ...
 69-157 1.92e-08

second cyclin box found in cyclin-L1 (CCNL1) and similar proteins; CCNL1 is an L-type cyclin involved in the regulation of RNA polymerase II (pol II) transcription. It functions in association with cyclin-dependent kinases (CDKs). CCNL1 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410295 [Multi-domain]  Cd Length: 123  Bit Score: 50.77  E-value: 1.92e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQE--DMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQ---KDARQWFAELSVDMEKIL 143
Cdd:cd20592   2 HPHKIIVMYLQVLECErnQTLVQTAWNYMNDSLRTNVFVRFQPETIACACIYLAARALQiplPNRPHWFLLFGATEEEIQ 81

                        90
                ....*....|....
gi 61676093 144 EIIRVILKLYEQWK 157
Cdd:cd20592  82 EICITTLKLYTRKK 95
CYCLIN_CCNL2_rpt2 cd20593
second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA ...
 69-157 6.02e-08

second cyclin box found in cyclin-2 (CCNL2) and similar proteins; CCNL2 is a novel RNA polymerase II-associated cyclin that is involved in pre-mRNA splicing. It may induce cell death, possibly by acting on the transcription and RNA processing of apoptosis-related factors. CCNL2 contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410296 [Multi-domain]  Cd Length: 123  Bit Score: 49.20  E-value: 6.02e-08
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQE--DMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQ---KDARQWFAELSVDMEKIL 143
Cdd:cd20593   1 HPHKIIVMYLQVLECErnRHLVQTSWNYMNDSLRTDVFVRFNPETIACACIYLAARTLEiplPNRPHWFLLFGATEEEIQ 80

                        90
                ....*....|....
gi 61676093 144 EIIRVILKLYEQWK 157
Cdd:cd20593  81 EICLKILQLYTRKK 94
CYCLIN_AcCycL_rpt2 cd20594
second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; ...
 67-157 1.32e-06

second cyclin box found in Arabidopsis thaliana L-type cyclins (CycL) and similar proteins; Cyclin-L1-1 (CycL1), also called arginine-rich cyclin 1 (AtRCY1), or protein MODIFIER OF SNC1 12, is the cognate cyclin for cyclin-dependent kinase G1 (CDKG1). It is involved in regulation of DNA methylation and transcriptional silencing. It is required for synapsis and male meiosis, and for the proper splicing of specific resistance (R) genes. L-type cyclins contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410297 [Multi-domain]  Cd Length: 101  Bit Score: 45.24  E-value: 1.32e-06
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  67 VYHPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVAC---VVQQKDARQWFAELSVDMEKIL 143
Cdd:cd20594   2 VEHPHKFILNYLAMLMAPPELRQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAArrfQVPLPENPPWWKVFDAEKAEID 81

                        90
                ....*....|....
gi 61676093 144 EIIRVILKLYEQWK 157
Cdd:cd20594  82 VVCKVLADLYRQPK 95
CYCLIN smart00385
domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and ...
 76-151 6.10e-06

domain present in cyclins, TFIIB and Retinoblastoma; A helical domain present in cyclins and TFIIB (twice) and Retinoblastoma (once). A protein recognition domain functioning in cell-cycle and transcription control.


Pssm-ID: 214641 [Multi-domain]  Cd Length: 83  Bit Score: 42.96  E-value: 6.10e-06
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093     76 QYVQDMGQEDML----LPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDArqWFAELSV-----DMEKILEII 146
Cdd:smart00385   1 DFLRRVCKALNLdpetLNLAVNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETPP--WTKELVHytgyfTEEEILRME 78


                   ....*
gi 61676093    147 RVILK 151
Cdd:smart00385  79 RLLLE 83
CYCLIN_AcCycH_rpt2 cd20586
second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; ...
 68-134 3.87e-05

second cyclin box found in Arabidopsis thaliana H-type cyclin (CycH) and similar proteins; CycH associates with and activates the cyclin-dependent kinases, CDK-2 and CDK-3. CycH contains two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410289 [Multi-domain]  Cd Length: 132  Bit Score: 41.65  E-value: 3.87e-05
                        10        20        30        40        50        60        70
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....
gi 61676093  68 YHPYRPLLQYVQDM------------GQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQWFAE 134
Cdd:cd20586   1 YAPYRALEGFVQDLeeflaagsgpdsQGLQELRKAALAAVDKLMLTDAPLLYPPGQLALAALRSANKAKGGVDFDRYLE 79
CYCLIN_SF cd00043
Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in ...
 69-147 6.28e-04

Cyclin box fold superfamily; The cyclin box is a protein binding domain that functions in cell-cycle and transcriptional control. It is about 100 amino acids in length, composed of five helices, and is present in cyclins, transcription initiation factor IIB (TFIIB), and retinoblastoma tumour suppressor protein (Rb). Cyclins consist of 8 classes of cell cycle regulators that function as regulatory subunits of cyclin-dependent kinases (CDKs), which are serine/threonine kinases. The catalytic activities of CDKs are modulated not only by their interactions with cyclins but also by CDK inhibitors (CKIs). CDKs, cyclins and CKIs play key roles in transcription, epigenetic regulation, metabolism, stem cell self-renewal, neuronal functions, and spermatogenesis. TFIIB is a transcription factor that binds the TATA box. Members in this superfamily contain one or two copies of the cyclin box.


Pssm-ID: 410207 [Multi-domain]  Cd Length: 82  Bit Score: 37.39  E-value: 6.28e-04
                        10        20        30        40        50        60        70        80
                ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 61676093  69 HPYRPLLQYVQDMGQEDMLLPLAWRIVNDTYRTDLCLLYPPFMIALACLHVACVVQQKDARQ-WFAELS-VDMEKILEII 146
Cdd:cd00043   1 KAVDFIRRLCSKLGLPEEVLELAIELLDRFLSKGLLLGRSPELIAAACLYLACKLEELPRTLkEIAKVSgVSEKELRKAE 80


                .
gi 61676093 147 R 147
Cdd:cd00043  81 K 81
CYCLIN_CCNT_rpt2 cd20539
second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, ...
 101-147 4.97e-03

second cyclin box found in cyclin-T (CCNT) family; The CCNT family includes two C-type cyclins, cyclin-T1 (CCNT1) and cyclin-T2 (CCNT2), both of which are regulatory subunits of the cyclin-dependent kinase pair (CDK9/cyclin-T) complex, also called positive transcription elongation factor B (P-TEFb), which is proposed to facilitate the transition from abortive to productive elongation by phosphorylating the CTD (C-terminal domain) of the large subunit of RNA polymerase II (RNA Pol II). Members in this family contain two cyclin boxes. This model corresponds to the second one. The cyclin box is a protein binding domain.


Pssm-ID: 410242 [Multi-domain]  Cd Length: 92  Bit Score: 34.94  E-value: 4.97e-03
                        10        20        30        40        50
                ....*....|....*....|....*....|....*....|....*....|...
gi 61676093 101 TDLCLLYPPFMIALACLHVAC------VVQQKDARQWFAelSVDMEKILEIIR 147
Cdd:cd20539  35 TTFCLQYKPTVIACVCIHLACkwsnweIPRSSEGKDWYE--YVDPSLTLEELD 85
 
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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