|
Name |
Accession |
Description |
Interval |
E-value |
| HSH155 super family |
cl26678 |
U2 snRNP spliceosome subunit [RNA processing and modification]; |
446-1304 |
0e+00 |
|
U2 snRNP spliceosome subunit [RNA processing and modification];
The actual alignment was detected with superfamily member COG5181:
Pssm-ID: 227508 [Multi-domain] Cd Length: 975 Bit Score: 1206.70 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181 118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181 198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181 278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181 358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181 438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181 518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181 598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181 678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181 758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181 838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917
|
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1245 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPrIYNDDKNTYIRyELDYIL 1304
Cdd:COG5181 918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYP-VEEDLNPELAR-TLHICI 975
|
|
| SF3b1 |
pfam08920 |
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ... |
332-442 |
1.77e-66 |
|
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C-terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly.
:
Pssm-ID: 462634 [Multi-domain] Cd Length: 114 Bit Score: 219.55 E-value: 1.77e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920 1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78
|
90 100 110
....*....|....*....|....*....|....*.
gi 189339231 408 FP-EGYKVLPPPAGYVPIRTPARKLTATPTPLGGMT 442
Cdd:pfam08920 79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
|
|
| CTD |
smart01104 |
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ... |
241-382 |
1.70e-11 |
|
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.
:
Pssm-ID: 215026 [Multi-domain] Cd Length: 121 Bit Score: 62.54 E-value: 1.70e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104 1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339231 320 GDSIGETPTPGAS---KRKSRWDET--PASQMGGSTPVLTPGKTPIGTPamnMATPTPGHIMSMTPEQ 382
Cdd:smart01104 57 GPTGSRTPAWGGAsawGNKSSEGSAssWAAGPGGAYGAPTPGYGGTPSA---YGPATPGGGAMAGSAS 121
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| HSH155 |
COG5181 |
U2 snRNP spliceosome subunit [RNA processing and modification]; |
446-1304 |
0e+00 |
|
U2 snRNP spliceosome subunit [RNA processing and modification];
Pssm-ID: 227508 [Multi-domain] Cd Length: 975 Bit Score: 1206.70 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181 118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181 198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181 278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181 358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181 438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181 518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181 598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181 678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181 758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181 838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917
|
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1245 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPrIYNDDKNTYIRyELDYIL 1304
Cdd:COG5181 918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYP-VEEDLNPELAR-TLHICI 975
|
|
| SF3b1 |
pfam08920 |
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ... |
332-442 |
1.77e-66 |
|
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C-terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly.
Pssm-ID: 462634 [Multi-domain] Cd Length: 114 Bit Score: 219.55 E-value: 1.77e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920 1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78
|
90 100 110
....*....|....*....|....*....|....*.
gi 189339231 408 FP-EGYKVLPPPAGYVPIRTPARKLTATPTPLGGMT 442
Cdd:pfam08920 79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
|
|
| CTD |
smart01104 |
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ... |
241-382 |
1.70e-11 |
|
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.
Pssm-ID: 215026 [Multi-domain] Cd Length: 121 Bit Score: 62.54 E-value: 1.70e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104 1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339231 320 GDSIGETPTPGAS---KRKSRWDET--PASQMGGSTPVLTPGKTPIGTPamnMATPTPGHIMSMTPEQ 382
Cdd:smart01104 57 GPTGSRTPAWGGAsawGNKSSEGSAssWAAGPGGAYGAPTPGYGGTPSA---YGPATPGGGAMAGSAS 121
|
|
| PHA03307 |
PHA03307 |
transcriptional regulator ICP4; Provisional |
176-372 |
5.22e-07 |
|
transcriptional regulator ICP4; Provisional
Pssm-ID: 223039 [Multi-domain] Cd Length: 1352 Bit Score: 54.41 E-value: 5.22e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 176 AKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGATPKK-------LSSWDQAETPGhtPSLRWDETPGRAKGSETPGAT 248
Cdd:PHA03307 188 SPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRsaaddagASSSDSSSSES--SGCGWGPENECPLPRPAPITL 265
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 249 PGSkIW--------DPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRW------DETPKTERD------------ 302
Cdd:PHA03307 266 PTR-IWeasgwngpSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSssssreSSSSSTSSSsessrgaavspg 344
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 303 -------TPGHGSGWAETPRTDRGGDSIGETPTPGASK-----RKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATP 370
Cdd:PHA03307 345 pspsrspSPSRPPPPADPSSPRKRPRPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASG 424
|
..
gi 189339231 371 TP 372
Cdd:PHA03307 425 AF 426
|
|
| HEAT_EZ |
pfam13513 |
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats ... |
987-1042 |
1.25e-03 |
|
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats (see pfam00514). These EZ repeats are found in subunits of cyanobacterial phycocyanin lyase and other proteins and probably carry out a scaffolding role.
Pssm-ID: 463906 [Multi-domain] Cd Length: 55 Bit Score: 38.12 E-value: 1.25e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 189339231 987 PEVLGSILGALKAIVNViGMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRI 1042
Cdd:pfam13513 1 WRVREAAALALGSLAEG-GPDLLAPAVPELLPALLPLLNDDSDLVREAAAWALGRL 55
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
233-437 |
1.98e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 42.67 E-value: 1.98e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 233 DETPGRAKGSETP---GATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERDTPGHGSG 309
Cdd:PRK07764 589 GPAPGAAGGEGPPapaSSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDG 668
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 310 WAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGhimsmtpeqlqAWRWE 389
Cdd:PRK07764 669 WPA-----KAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQG-----------ASAPS 732
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 189339231 390 REIDERNRPLSDEELDAMFPEGYKVLPPPAGYVPIRTPARKLTATPTP 437
Cdd:PRK07764 733 PAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPS 780
|
|
| |
|
Name |
Accession |
Description |
Interval |
E-value |
| HSH155 |
COG5181 |
U2 snRNP spliceosome subunit [RNA processing and modification]; |
446-1304 |
0e+00 |
|
U2 snRNP spliceosome subunit [RNA processing and modification];
Pssm-ID: 227508 [Multi-domain] Cd Length: 975 Bit Score: 1206.70 E-value: 0e+00
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181 118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181 198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181 278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357
|
250 260 270 280 290 300 310 320
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181 358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437
|
330 340 350 360 370 380 390 400
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181 438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517
|
410 420 430 440 450 460 470 480
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181 518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597
|
490 500 510 520 530 540 550 560
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181 598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677
|
570 580 590 600 610 620 630 640
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181 678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757
|
650 660 670 680 690 700 710 720
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181 758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837
|
730 740 750 760 770 780 790 800
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181 838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917
|
810 820 830 840 850 860
....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 1245 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPrIYNDDKNTYIRyELDYIL 1304
Cdd:COG5181 918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYP-VEEDLNPELAR-TLHICI 975
|
|
| SF3b1 |
pfam08920 |
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ... |
332-442 |
1.77e-66 |
|
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B subunit 1 proteins, which associate with p14 through a C-terminus beta-strand that interacts with beta-3 of the p14 RNA recognition motif (RRM) beta-sheet, which is in turn connected to an alpha-helix by a loop that makes extensive contacts with both the shorter C-terminal helix and RRM of p14. This subunit is required for 'A' splicing complex assembly (formed by the stable binding of U2 snRNP to the branchpoint sequence in pre-mRNA) and 'E' splicing complex assembly.
Pssm-ID: 462634 [Multi-domain] Cd Length: 114 Bit Score: 219.55 E-value: 1.77e-66
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920 1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78
|
90 100 110
....*....|....*....|....*....|....*.
gi 189339231 408 FP-EGYKVLPPPAGYVPIRTPARKLTATPTPLGGMT 442
Cdd:pfam08920 79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
|
|
| CTD |
smart01104 |
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ... |
241-382 |
1.70e-11 |
|
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.
Pssm-ID: 215026 [Multi-domain] Cd Length: 121 Bit Score: 62.54 E-value: 1.70e-11
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104 1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56
|
90 100 110 120 130 140
....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 189339231 320 GDSIGETPTPGAS---KRKSRWDET--PASQMGGSTPVLTPGKTPIGTPamnMATPTPGHIMSMTPEQ 382
Cdd:smart01104 57 GPTGSRTPAWGGAsawGNKSSEGSAssWAAGPGGAYGAPTPGYGGTPSA---YGPATPGGGAMAGSAS 121
|
|
| CTD |
smart01104 |
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ... |
206-331 |
3.58e-07 |
|
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription elongation factor protein Spt5 is necessary for binding to Spt4 to form the functional complex that regulates early transcription elongation by RNA polymerase II. The complex may be involved in pre-mRNA processing through its association with mRNA capping enzymes. This CTD domain carries a regular nonapeptide repeat that can be present in up to 18 copies, as in S. pombe. The repeat has a characteristic TPA motif.
Pssm-ID: 215026 [Multi-domain] Cd Length: 121 Bit Score: 50.21 E-value: 3.58e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 206 QTP--GATPKKLSSWdqaetPGHTPSLRWDETPGRAKGSetpgatpGSKiwdpTPSHTPAGAATPGRGDTPGH--ATPGH 281
Cdd:smart01104 3 RTPawGASGSKTPAW-----GSRTPGTAAGGAPTARGGS-------GSR----TPAWGGAGSRTPAWGGAGPTgsRTPAW 66
|
90 100 110 120 130
....*....|....*....|....*....|....*....|....*....|
gi 189339231 282 GGATSSARKNRWDeTPKTERDTPGHGSGwAETPrtdrGGDSIGETPTPGA 331
Cdd:smart01104 67 GGASAWGNKSSEG-SASSWAAGPGGAYG-APTP----GYGGTPSAYGPAT 110
|
|
| PHA03307 |
PHA03307 |
transcriptional regulator ICP4; Provisional |
176-372 |
5.22e-07 |
|
transcriptional regulator ICP4; Provisional
Pssm-ID: 223039 [Multi-domain] Cd Length: 1352 Bit Score: 54.41 E-value: 5.22e-07
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 176 AKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGATPKK-------LSSWDQAETPGhtPSLRWDETPGRAKGSETPGAT 248
Cdd:PHA03307 188 SPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRsaaddagASSSDSSSSES--SGCGWGPENECPLPRPAPITL 265
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 249 PGSkIW--------DPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRW------DETPKTERD------------ 302
Cdd:PHA03307 266 PTR-IWeasgwngpSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSssssreSSSSSTSSSsessrgaavspg 344
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 303 -------TPGHGSGWAETPRTDRGGDSIGETPTPGASK-----RKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATP 370
Cdd:PHA03307 345 pspsrspSPSRPPPPADPSSPRKRPRPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASG 424
|
..
gi 189339231 371 TP 372
Cdd:PHA03307 425 AF 426
|
|
| PHA03247 |
PHA03247 |
large tegument protein UL36; Provisional |
186-443 |
3.60e-05 |
|
large tegument protein UL36; Provisional
Pssm-ID: 223021 [Multi-domain] Cd Length: 3151 Bit Score: 48.40 E-value: 3.60e-05
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 186 GAAASQPPSKRKRRWDQTADQTPGATPKKlsSWDQAETPGH-TPSLRWDETPGRA---------KGSETPGATPGSkiwD 255
Cdd:PHA03247 2476 GAPVYRRPAEARFPFAAGAAPDPGGGGPP--DPDAPPAPSRlAPAILPDEPVGEPvhprmltwiRGLEELASDDAG---D 2550
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 256 PTPSHTPAG-AATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERdtpghgsgwAETPRTDRGgDSIGETPTPGASKR 334
Cdd:PHA03247 2551 PPPPLPPAApPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSAR---------PRAPVDDRG-DPRGPAPPSPLPPD 2620
|
170 180 190 200 210 220 230 240
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 335 KSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGHImSMTPEQLQAWRWEREIDERNRPLSDEELDAMFPEGYKV 414
Cdd:PHA03247 2621 THAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLA 2699
|
250 260
....*....|....*....|....*....
gi 189339231 415 LPPPAGYVPIRTPARKLTATPTPLGGMTG 443
Cdd:PHA03247 2700 DPPPPPPTPEPAPHALVSATPLPPGPAAA 2728
|
|
| dnaA |
PRK14086 |
chromosomal replication initiator protein DnaA; |
191-356 |
1.46e-04 |
|
chromosomal replication initiator protein DnaA;
Pssm-ID: 237605 [Multi-domain] Cd Length: 617 Bit Score: 45.97 E-value: 1.46e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 191 QPPSKRKRRWDQtADQTPGATPKKLSSWDQAEtPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAATPGR 270
Cdd:PRK14086 124 PRADDRPPGLPR-QDQLPTARPAYPAYQQRPE-PGAWPRAADDYGWQQQRLGFPPRAPYASPASYAPEQERDREPYDAGR 201
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 271 GDTPGHATPGHGGATSSARKNRWDetpkTERDTPGHGSGWAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQmggST 350
Cdd:PRK14086 202 PEYDQRRRDYDHPRPDWDRPRRDR----TDRPEPPPGAGHVH-----RGGPGPPERDDAPVVPIRPSAPGPLAAQ---PA 269
|
....*.
gi 189339231 351 PVLTPG 356
Cdd:PRK14086 270 PAPGPG 275
|
|
| PRK14959 |
PRK14959 |
DNA polymerase III subunits gamma and tau; Provisional |
237-351 |
4.04e-04 |
|
DNA polymerase III subunits gamma and tau; Provisional
Pssm-ID: 184923 [Multi-domain] Cd Length: 624 Bit Score: 44.67 E-value: 4.04e-04
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 237 GRAKGSETPGATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGG-ATSSARKNRWDETPKterdTPGHGSGWAetpr 315
Cdd:PRK14959 379 SAPSGSAAEGPASGGAATIPTPGTQGPQGTAPAAGMTPSSAAPATPApSAAPSPRVPWDDAPP----APPRSGIPP---- 450
|
90 100 110
....*....|....*....|....*....|....*..
gi 189339231 316 tdRGGDSIGET-PTPGASKRKSRWDETPASQMGGSTP 351
Cdd:PRK14959 451 --RPAPRMPEAsPVPGAPDSVASASDAPPTLGDPSDT 485
|
|
| HEAT_EZ |
pfam13513 |
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats ... |
987-1042 |
1.25e-03 |
|
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats (see pfam00514). These EZ repeats are found in subunits of cyanobacterial phycocyanin lyase and other proteins and probably carry out a scaffolding role.
Pssm-ID: 463906 [Multi-domain] Cd Length: 55 Bit Score: 38.12 E-value: 1.25e-03
10 20 30 40 50
....*....|....*....|....*....|....*....|....*....|....*.
gi 189339231 987 PEVLGSILGALKAIVNViGMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRI 1042
Cdd:pfam13513 1 WRVREAAALALGSLAEG-GPDLLAPAVPELLPALLPLLNDDSDLVREAAAWALGRL 55
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
188-406 |
1.27e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 43.05 E-value: 1.27e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 188 AASQPPSKRKRRWDQTADQTPGATPKklsswdqAETPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAAT 267
Cdd:PRK07764 616 AAPAAPAAPAAPAPAGAAAAPAEASA-------APAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPA 688
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 268 PGRGDTPGHATPGHGGATSSARKNRWDETPkterdTPGHGSGWAETPRTDRGGDSIGETPTPGAskrksrwDETPASQMG 347
Cdd:PRK07764 689 APAAPAGAAPAQPAPAPAATPPAGQADDPA-----AQPPQAAQGASAPSPAADDPVPLPPEPDD-------PPDPAGAPA 756
|
170 180 190 200 210
....*....|....*....|....*....|....*....|....*....|....*....
gi 189339231 348 GSTPVLTPGKTPIGTPAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDA 406
Cdd:PRK07764 757 QPPPPPAPAPAAAPAAAPPPSPPSEEEEMAEDDAPSMDDEDRRDAEEVAMELLEEELGA 815
|
|
| PRK07764 |
PRK07764 |
DNA polymerase III subunits gamma and tau; Validated |
233-437 |
1.98e-03 |
|
DNA polymerase III subunits gamma and tau; Validated
Pssm-ID: 236090 [Multi-domain] Cd Length: 824 Bit Score: 42.67 E-value: 1.98e-03
10 20 30 40 50 60 70 80
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 233 DETPGRAKGSETP---GATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERDTPGHGSG 309
Cdd:PRK07764 589 GPAPGAAGGEGPPapaSSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDG 668
|
90 100 110 120 130 140 150 160
....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 189339231 310 WAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGhimsmtpeqlqAWRWE 389
Cdd:PRK07764 669 WPA-----KAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQG-----------ASAPS 732
|
170 180 190 200
....*....|....*....|....*....|....*....|....*...
gi 189339231 390 REIDERNRPLSDEELDAMFPEGYKVLPPPAGYVPIRTPARKLTATPTP 437
Cdd:PRK07764 733 PAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPS 780
|
|
| |
