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Conserved domains on  [gi|269849656|sp|O75533|]
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RecName: Full=Splicing factor 3B subunit 1; AltName: Full=Pre-mRNA-splicing factor SF3b 155 kDa subunit; Short=SF3b155; AltName: Full=Spliceosome-associated protein 155; Short=SAP 155

Protein Classification

CTD and SF3b1 domain-containing protein( domain architecture ID 12225364)

protein containing domains CTD, SF3b1, and HSH155

Graphical summary

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List of domain hits

 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 269849656  446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181   118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181   198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181   278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181   358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181   438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181   518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181   598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181   678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181   758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181   838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                         810       820       830       840       850       860
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 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 269849656   332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 269849656   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 269849656    241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104    1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269849656    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 269849656  446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181   118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181   198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181   278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181   358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181   438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181   518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181   598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181   678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181   758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181   838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                         810       820       830       840       850       860
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 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 269849656   332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 269849656   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 269849656    241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104    1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269849656    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 269849656  176 AKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGATPKK-------LSSWDQAETPGhtPSLRWDETPGRAKGSETPGAT 248
Cdd:PHA03307  188 SPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRsaaddagASSSDSSSSES--SGCGWGPENECPLPRPAPITL 265

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  249 PGSkIW--------DPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRW------DETPKTERD------------ 302
Cdd:PHA03307  266 PTR-IWeasgwngpSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSssssreSSSSSTSSSsessrgaavspg 344

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  303 -------TPGHGSGWAETPRTDRGGDSIGETPTPGASK-----RKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATP 370
Cdd:PHA03307  345 pspsrspSPSRPPPPADPSSPRKRPRPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASG 424


                  ..
gi 269849656  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 269849656   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 269849656  233 DETPGRAKGSETP---GATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERDTPGHGSG 309
Cdd:PRK07764  589 GPAPGAAGGEGPPapaSSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDG 668

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  310 WAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGhimsmtpeqlqAWRWE 389
Cdd:PRK07764  669 WPA-----KAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQG-----------ASAPS 732

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 269849656  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 269849656  446 MQTEDRTMKSVNDQPS-GNLPFLKPDDIQYFDKLLVDVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 524
Cdd:COG5181   118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  525 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 604
Cdd:COG5181   198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  605 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 684
Cdd:COG5181   278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  685 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 764
Cdd:COG5181   358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  765 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCGTDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 844
Cdd:COG5181   438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  845 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 924
Cdd:COG5181   518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  925 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1004
Cdd:COG5181   598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                         570       580       590       600       610       620       630       640
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1005 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1084
Cdd:COG5181   678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                         650       660       670       680       690       700       710       720
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1085 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1164
Cdd:COG5181   758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                         730       740       750       760       770       780       790       800
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 1165 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1244
Cdd:COG5181   838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                         810       820       830       840       850       860
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656 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 269849656   332 SKRKSRWDETPASQM---GGSTPVLTPGK-TPIGtpAMNMATPTPGHIMSMTPEQLQAWRWEREIDERNRPLSDEELDAM 407
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 269849656   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 269849656    241 GSETPGatpgskiWDPTPSHTPA-GAATPGRGDTPGHATPGHGGATssarknrwdetpkterdTPGHGSGWAETPRTDRG 319
Cdd:smart01104    1 GGRTPA-------WGASGSKTPAwGSRTPGTAAGGAPTARGGSGSR-----------------TPAWGGAGSRTPAWGGA 56

                            90       100       110       120       130       140
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 269849656    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 269849656    206 QTP--GATPKKLSSWdqaetPGHTPSLRWDETPGRAKGSetpgatpGSKiwdpTPSHTPAGAATPGRGDTPGH--ATPGH 281
Cdd:smart01104    3 RTPawGASGSKTPAW-----GSRTPGTAAGGAPTARGGS-------GSR----TPAWGGAGSRTPAWGGAGPTgsRTPAW 66

                            90       100       110       120       130
                    ....*....|....*....|....*....|....*....|....*....|
gi 269849656    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 269849656  176 AKAGELKVVNGAAASQPPSKRKRRWDQTADQTPGATPKK-------LSSWDQAETPGhtPSLRWDETPGRAKGSETPGAT 248
Cdd:PHA03307  188 SPPAEPPPSTPPAAASPRPPRRSSPISASASSPAPAPGRsaaddagASSSDSSSSES--SGCGWGPENECPLPRPAPITL 265

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  249 PGSkIW--------DPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRW------DETPKTERD------------ 302
Cdd:PHA03307  266 PTR-IWeasgwngpSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSssssreSSSSSTSSSsessrgaavspg 344

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  303 -------TPGHGSGWAETPRTDRGGDSIGETPTPGASK-----RKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATP 370
Cdd:PHA03307  345 pspsrspSPSRPPPPADPSSPRKRPRPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASG 424


                  ..
gi 269849656  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 269849656  186 GAAASQPPSKRKRRWDQTADQTPGATPKKlsSWDQAETPGH-TPSLRWDETPGRA---------KGSETPGATPGSkiwD 255
Cdd:PHA03247 2476 GAPVYRRPAEARFPFAAGAAPDPGGGGPP--DPDAPPAPSRlAPAILPDEPVGEPvhprmltwiRGLEELASDDAG---D 2550

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  256 PTPSHTPAG-AATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERdtpghgsgwAETPRTDRGgDSIGETPTPGASKR 334
Cdd:PHA03247 2551 PPPPLPPAApPAAPDRSVPPPRPAPRPSEPAVTSRARRPDAPPQSAR---------PRAPVDDRG-DPRGPAPPSPLPPD 2620

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  335 KSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGHImSMTPEQLQAWRWEREIDERNRPLSDEELDAMFPEGYKV 414
Cdd:PHA03247 2621 THAPDPPPPSPSPAANEPDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLA 2699

                         250       260
                  ....*....|....*....|....*....
gi 269849656  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 269849656  191 QPPSKRKRRWDQtADQTPGATPKKLSSWDQAEtPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAATPGR 270
Cdd:PRK14086  124 PRADDRPPGLPR-QDQLPTARPAYPAYQQRPE-PGAWPRAADDYGWQQQRLGFPPRAPYASPASYAPEQERDREPYDAGR 201

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  271 GDTPGHATPGHGGATSSARKNRWDetpkTERDTPGHGSGWAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQmggST 350
Cdd:PRK14086  202 PEYDQRRRDYDHPRPDWDRPRRDR----TDRPEPPPGAGHVH-----RGGPGPPERDDAPVVPIRPSAPGPLAAQ---PA 269


                  ....*.
gi 269849656  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 269849656  237 GRAKGSETPGATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGG-ATSSARKNRWDETPKterdTPGHGSGWAetpr 315
Cdd:PRK14959  379 SAPSGSAAEGPASGGAATIPTPGTQGPQGTAPAAGMTPSSAAPATPApSAAPSPRVPWDDAPP----APPRSGIPP---- 450

                          90       100       110
                  ....*....|....*....|....*....|....*..
gi 269849656  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 269849656   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 269849656  188 AASQPPSKRKRRWDQTADQTPGATPKklsswdqAETPGHTPSLRWDETPGRAKGSETPGATPGSKIWDPTPSHTPAGAAT 267
Cdd:PRK07764  616 AAPAAPAAPAAPAPAGAAAAPAEASA-------APAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPA 688

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  268 PGRGDTPGHATPGHGGATSSARKNRWDETPkterdTPGHGSGWAETPRTDRGGDSIGETPTPGAskrksrwDETPASQMG 347
Cdd:PRK07764  689 APAAPAGAAPAQPAPAPAATPPAGQADDPA-----AQPPQAAQGASAPSPAADDPVPLPPEPDD-------PPDPAGAPA 756

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*....
gi 269849656  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 269849656  233 DETPGRAKGSETP---GATPGSKIWDPTPSHTPAGAATPGRGDTPGHATPGHGGATSSARKNRWDETPKTERDTPGHGSG 309
Cdd:PRK07764  589 GPAPGAAGGEGPPapaSSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDG 668

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 269849656  310 WAEtprtdRGGDSIGETPTPGASKRKSRWDETPASQMGGSTPVLTPGKTPIGTPAMNMATPTPGhimsmtpeqlqAWRWE 389
Cdd:PRK07764  669 WPA-----KAGGAAPAAPPPAPAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAAQG-----------ASAPS 732

                         170       180       190       200
                  ....*....|....*....|....*....|....*....|....*...
gi 269849656  390 REIDERNRPLSDEELDAMFPEGYKVLPPPAGYVPIRTPARKLTATPTP 437
Cdd:PRK07764  733 PAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPS 780
 
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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