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Conserved domains on  [gi|68366436|ref|XP_684311|]
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splicing factor 3B subunit 1 isoform X1 [Danio rerio]

Protein Classification

splicing factor 3B subunit 1 family protein( domain architecture ID 12097887)

splicing factor 3B subunit 1 (SF3B1) family protein may be involved in pre-mRNA splicing as a component of the splicing factor SF3B complex

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];
457-1312 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: 1203.23  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  457 MQTEDRSMKQVNDQPS-GNLPFLKPDDIQYFDKLLVEVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 535
Cdd:COG5181  118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  536 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 615
Cdd:COG5181  198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  616 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 695
Cdd:COG5181  278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  696 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 775
Cdd:COG5181  358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  776 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCATDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 855
Cdd:COG5181  438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  856 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 935
Cdd:COG5181  518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  936 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1015
Cdd:COG5181  598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1016 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1095
Cdd:COG5181  678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1096 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1175
Cdd:COG5181  758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1176 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1255
Cdd:COG5181  838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                        810       820       830       840       850
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436 1256 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPLIfnDEKNSYVRYELE 1312
Cdd:COG5181  918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYPVE--EDLNPELARTLH 972
SF3b1 pfam08920
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ...
 343-453 7.18e-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: 217.63  E-value: 7.18e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436    343 SKRKSRWDETPASQM---GSSTPLLTPGK-TPLGtpAMNMATPTPGHLMSMTPEQLQAWRWEREIDERNRPLTDEELDAM 418
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 68366436    419 FP-EGYKVLPPPAGYVPIRTPARKLAATPTPIGGMT 453
Cdd:pfam08920   79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
PHA03307 super family cl33723
transcriptional regulator ICP4; Provisional
 188-383 3.39e-08

transcriptional regulator ICP4; Provisional


The actual alignment was detected with superfamily member PHA03307:

Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 58.26  E-value: 3.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   188 GSAASQAAAKRKRRWDQTADQTPSNSTPKKVSSWDQAD---GGSETPGHTPGHTPSNSRWDEtPGRPKGSETPGATPSTR 264
Cdd:PHA03307  216 SASSPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENecpLPRPAPITLPTRIWEASGWNG-PSSRPGPASSSSSPRER 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   265 MWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRknrwdETPKTERE-------------TPGHGSGWAETPRTDRGD 331
Cdd:PHA03307  295 SPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTS-----SSSESSRGaavspgpspsrspSPSRPPPPADPSSPRKRP 369

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436   332 ESVGETPTPGASK-----RKSRWDETPASQMGSSTPLLTPGKTPLGTPAMNMATPTP 383
Cdd:PHA03307  370 RPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASGAF 426
 
Name Accession Description Interval E-value
HSH155 COG5181
U2 snRNP spliceosome subunit [RNA processing and modification];
457-1312 0e+00

U2 snRNP spliceosome subunit [RNA processing and modification];


Pssm-ID: 227508 [Multi-domain]  Cd Length: 975  Bit Score: 1203.23  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  457 MQTEDRSMKQVNDQPS-GNLPFLKPDDIQYFDKLLVEVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 535
Cdd:COG5181  118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  536 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 615
Cdd:COG5181  198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  616 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 695
Cdd:COG5181  278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  696 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 775
Cdd:COG5181  358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  776 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCATDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 855
Cdd:COG5181  438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  856 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 935
Cdd:COG5181  518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  936 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1015
Cdd:COG5181  598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1016 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1095
Cdd:COG5181  678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1096 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1175
Cdd:COG5181  758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1176 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1255
Cdd:COG5181  838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                        810       820       830       840       850
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436 1256 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPLIfnDEKNSYVRYELE 1312
Cdd:COG5181  918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYPVE--EDLNPELARTLH 972
SF3b1 pfam08920
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ...
 343-453 7.18e-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: 217.63  E-value: 7.18e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436    343 SKRKSRWDETPASQM---GSSTPLLTPGK-TPLGtpAMNMATPTPGHLMSMTPEQLQAWRWEREIDERNRPLTDEELDAM 418
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 68366436    419 FP-EGYKVLPPPAGYVPIRTPARKLAATPTPIGGMT 453
Cdd:pfam08920   79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 188-383 3.39e-08

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 58.26  E-value: 3.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   188 GSAASQAAAKRKRRWDQTADQTPSNSTPKKVSSWDQAD---GGSETPGHTPGHTPSNSRWDEtPGRPKGSETPGATPSTR 264
Cdd:PHA03307  216 SASSPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENecpLPRPAPITLPTRIWEASGWNG-PSSRPGPASSSSSPRER 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   265 MWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRknrwdETPKTERE-------------TPGHGSGWAETPRTDRGD 331
Cdd:PHA03307  295 SPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTS-----SSSESSRGaavspgpspsrspSPSRPPPPADPSSPRKRP 369

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436   332 ESVGETPTPGASK-----RKSRWDETPASQMGSSTPLLTPGKTPLGTPAMNMATPTP 383
Cdd:PHA03307  370 RPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASGAF 426
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 231-393 1.09e-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: 51.75  E-value: 1.09e-07
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436     231 PGHTPGHTPSNSRwdeTPGRpkGSETPGATPstrmWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRKnrwdetpkt 310
Cdd:smart01104    1 GGRTPAWGASGSK---TPAW--GSRTPGTAA----GGAPTARGGSGSRTPAWGGAGSRTPAWGGAGPTGSR--------- 62

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436     311 ereTPGHGSGWAETPRTDRGDESvgetptpgaskrksrwdeTPASQMGSSTPLLTPGKTPLGTPamnMATPTPGHLMSMT 390
Cdd:smart01104   63 ---TPAWGGASAWGNKSSEGSAS------------------SWAAGPGGAYGAPTPGYGGTPSA---YGPATPGGGAMAG 118


                    ...
gi 68366436     391 PEQ 393
Cdd:smart01104  119 SAS 121
HEAT_EZ pfam13513
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats ...
 998-1053 1.07e-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: 38.50  E-value: 1.07e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 68366436    998 PEVLGSILGALKAIVNViGMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRI 1053
Cdd:pfam13513    1 WRVREAAALALGSLAEG-GPDLLAPAVPELLPALLPLLNDDSDLVREAAAWALGRL 55
 
Name Accession Description Interval E-value
HSH155 COG5181
U2 snRNP spliceosome subunit [RNA processing and modification];
457-1312 0e+00

U2 snRNP spliceosome subunit [RNA processing and modification];


Pssm-ID: 227508 [Multi-domain]  Cd Length: 975  Bit Score: 1203.23  E-value: 0e+00
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  457 MQTEDRSMKQVNDQPS-GNLPFLKPDDIQYFDKLLVEVDESTLSPEEQKERKIMKLLLKIKNGTPPMRKAALRQITDKAR 535
Cdd:COG5181  118 MCLPARGYKALTDFHGyADLGFFKVEDLKYFADDEKDFFMPLLEDREGDERDVYRLLLKVKNGGKRMRMEGLRILTDKAV 197

                         90       100       110       120       130       140       150       160
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  536 EFGAGPLFNQILPLLMSPTLEDQERHLLVKVIDRILYKLDDLVRPYVHKILVVIEPLLIDEDYYARVEGREIISNLAKAA 615
Cdd:COG5181  198 NFGAAAVFNKVLPMLMSRELEDQERHLVVKLIDRLLYGLDDLKVPYVHKILVVVGPLLIDEDLKRRCMGREIILNLVYRC 277

                        170       180       190       200       210       220       230       240
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  616 GLATMISTMRPDIDNMDEYVRNTTARAFAVVASALGIPSLLPFLKAVCKSKKSWQARHTGIKIVQQIAILMGCAILPHLR 695
Cdd:COG5181  278 GLGFSVSSMRPDITSKDEYVRNVTGRAVGVVADALGVEELLPFLEALCGSRKSWEARHTGIRIAQQICELLGRSRLSHLG 357

                        250       260       270       280       290       300       310       320
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  696 SLVEIIEHGLVDEQQKVRTISALAIAALAEAATPYGIESFDSVLKPLWKGIRQHRGKGLAAFLKAIGYLIPLMDAEYANY 775
Cdd:COG5181  358 PLLKCISKLLKDRSRFVRIDTANALSYLAELVGPYGIEQFDEVLCPLWEGASQHRGKELVSFLKAMGFIIPLMSPEYACH 437

                        330       340       350       360       370       380       390       400
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  776 YTREVMLILIREFQSPDEEMKKIVLKVVKQCCATDGVEANYIKTEILPPFFKHFWQHRMALDRRNYRQLVDTTVELANKV 855
Cdd:COG5181  438 DTREHMEIVFREFKSPDEEMKKDLLVVERICDKVGTDTPWKLRDQVSPEFFSPFWRRRSAGDRRSYKQVVLTTVILAKMG 517

                        410       420       430       440       450       460       470       480
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  856 GAAEIISRIVDDLKDEAEQYRKMVMETIEKIMGNLGAADIDHKLEEQLIDGILYAFQEQTTEDSVMLNGFGTVVNALGKR 935
Cdd:COG5181  518 GDPRVSRKILEYYSDEPEPYRKMNAGLVSRIFSRLGRLGFDERLEERLYDSILNAFQEQDTTVGLILPCFSTVLVSLEFR 597

                        490       500       510       520       530       540       550       560
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436  936 VKPYLPQICGTVLWRLNNKSAKVRQQAADLISRTAVVMKTCQEEKLMGHLGVVLYEYLGEEYPEVLGSILGALKAIVNVI 1015
Cdd:COG5181  598 GKPHLSMIVSTILKLLRSKPPDVRIRAADLMGSLAKVLKACGETKELAKLGNILYENLGEDYPEVLGSILKAICSIYSVH 677

                        570       580       590       600       610       620       630       640
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1016 GMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRIADRGAEYVSAREWMRICFELLELLKAHKKAIRRATVNTFGYI 1095
Cdd:COG5181  678 RFRSMQPPISGILPSLTPILRNKHQKVVANTIALVGTICMNSPEYIGVREWMRICFELVDSLKSWNKEIRRNATETFGCI 757

                        650       660       670       680       690       700       710       720
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1096 AKAIGPHDVLATLLNNLKVQERQNRVCTTVAIAIVAETCSPFTVLPALMNEYRVPELNVQNGVLKSLSFLFEYIGEMGKD 1175
Cdd:COG5181  758 SRAIGPQDVLDILLNNLKVQERQQRVCTSVAISIVAEYCGPFSVLPTLMSDYETPEANVQNGVLKAMCFMFEYIGQASLD 837

                        730       740       750       760       770       780       790       800
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436 1176 YIYAVTPLLEDALMDRDLVHRQTASAVVQHMSLGVYGFGCEDSLNHLLNYVWPNVFETSPHVIQAVMGALEGLRVAIGPC 1255
Cdd:COG5181  838 YVYSITPLLEDALTDRDPVHRQTAMNVIRHLVLNCPGTGDEDAAIHLLNLLWPNILEPSPHVIQSFDEGMESFATVLGSG 917

                        810       820       830       840       850
                 ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436 1256 RMLQYCLQGLFHPARKVRDVYWKIYNSIYIGSQDALIAHYPLIfnDEKNSYVRYELE 1312
Cdd:COG5181  918 AMMKYVQQGLFHPSSTVRKRYWTVYNIMYVFDSDAMVPCYPVE--EDLNPELARTLH 972
SF3b1 pfam08920
Splicing factor 3B subunit 1; This family consists of several eukaryotic splicing factor 3B ...
 343-453 7.18e-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: 217.63  E-value: 7.18e-66
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436    343 SKRKSRWDETPASQM---GSSTPLLTPGK-TPLGtpAMNMATPTPGHLMSMTPEQLQAWRWEREIDERNRPLTDEELDAM 418
Cdd:pfam08920    1 SKRRSRWDETPANAGsgpGGATPGETPGRqTPVG--AMGMATPTPGALGPMTPEQMQAFRWEKEIDERNRPLTDEELDAM 78

                           90       100       110
                   ....*....|....*....|....*....|....*.
gi 68366436    419 FP-EGYKVLPPPAGYVPIRTPARKLAATPTPIGGMT 453
Cdd:pfam08920   79 LPgEGYKILDPPAGYVPIRTPARKLLATPTPMGGTG 114
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 188-383 3.39e-08

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 58.26  E-value: 3.39e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   188 GSAASQAAAKRKRRWDQTADQTPSNSTPKKVSSWDQAD---GGSETPGHTPGHTPSNSRWDEtPGRPKGSETPGATPSTR 264
Cdd:PHA03307  216 SASSPAPAPGRSAADDAGASSSDSSSSESSGCGWGPENecpLPRPAPITLPTRIWEASGWNG-PSSRPGPASSSSSPRER 294

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   265 MWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRknrwdETPKTERE-------------TPGHGSGWAETPRTDRGD 331
Cdd:PHA03307  295 SPSPSPSSPGSGPAPSSPRASSSSSSSRESSSSSTS-----SSSESSRGaavspgpspsrspSPSRPPPPADPSSPRKRP 369

                         170       180       190       200       210
                  ....*....|....*....|....*....|....*....|....*....|....*..
gi 68366436   332 ESVGETPTPGASK-----RKSRWDETPASQMGSSTPLLTPGKTPLGTPAMNMATPTP 383
Cdd:PHA03307  370 RPSRAPSSPAASAgrptrRRARAAVAGRARRRDATGRFPAGRPRPSPLDAGAASGAF 426
PHA03377 PHA03377
EBNA-3C; Provisional
 204-448 8.46e-08

EBNA-3C; Provisional


Pssm-ID: 177614 [Multi-domain]  Cd Length: 1000  Bit Score: 56.98  E-value: 8.46e-08
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   204 QTADQTPSNSTP----KKVSSWDQADGGSETPGHTPGHTPSNSrwdetpGRPKGSETPGATPSTRMWEPTPSHTPAGAAT 279
Cdd:PHA03377  518 ETTEEEESVTQPakphRKVQDGFQRSGRRQKRATPPKVSPSDR------GPPKASPPVMAPPSTGPRVMATPSTGPRDMA 591

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   280 PGRDTPGHATPGHGGATSSVRKnrwDETPKTERETPGHGSGWAETPRTDRGDESVGETPTP----GASKRKSRWDETPAS 355
Cdd:PHA03377  592 PPSTGPRQQAKCKDGPPASGPH---EKQPPSSAPRDMAPSVVRMFLRERLLEQSTGPKPKSfwemRAGRDGSGIQQEPSS 668

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   356 QMGSSTPLLTPGKTPLGT----PAMNMATPTP---GHLMSMTP-------EQLQAWRWEREIDERNRPLTD--------- 412
Cdd:PHA03377  669 RRQPATQSTPPRPSWLPSvfvlPSVDAGRAQPseeSHLSSMSPtqpisheEQPRYEDPDDPLDLSLHPDQApppshqapy 748

                         250       260       270       280
                  ....*....|....*....|....*....|....*....|...
gi 68366436   413 ---EEL---DAMFPEGYKVLPPPAGYVPIRTP-ARKLAATPTP 448
Cdd:PHA03377  749 sghEEPqaqQAPYPGYWEPRPPQAPYLGYQEPqAQGVQVSSYP 791
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 231-393 1.09e-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: 51.75  E-value: 1.09e-07
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436     231 PGHTPGHTPSNSRwdeTPGRpkGSETPGATPstrmWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRKnrwdetpkt 310
Cdd:smart01104    1 GGRTPAWGASGSK---TPAW--GSRTPGTAA----GGAPTARGGSGSRTPAWGGAGSRTPAWGGAGPTGSR--------- 62

                            90       100       110       120       130       140       150       160
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436     311 ereTPGHGSGWAETPRTDRGDESvgetptpgaskrksrwdeTPASQMGSSTPLLTPGKTPLGTPamnMATPTPGHLMSMT 390
Cdd:smart01104   63 ---TPAWGGASAWGNKSSEGSAS------------------SWAAGPGGAYGAPTPGYGGTPSA---YGPATPGGGAMAG 118


                    ...
gi 68366436     391 PEQ 393
Cdd:smart01104  119 SAS 121
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 131-448 1.17e-06

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 53.25  E-value: 1.17e-06
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   131 SPERHDPFADGGKTPDPkvqvrtymdvmkeqqlskeereirlqmvekAKAGELKAVNGSAASQAAAKRkrrwDQTADQTP 210
Cdd:PHA03307  206 PPRRSSPISASASSPAP------------------------------APGRSAADDAGASSSDSSSSE----SSGCGWGP 251

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   211 SNSTPKkvsswdqadgGSETPGHTPGHTPSNSRWDEtPGRPKGSETPGATPSTRMWEPTPSHTPAGAATPGRDTPGHATP 290
Cdd:PHA03307  252 ENECPL----------PRPAPITLPTRIWEASGWNG-PSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSS 320

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   291 GHGGATSSVRknrwdETPKTERETPGH-GSGWAETPRTDRGDEsvgetPTPGASKRKSrwdetPASQMGSSTPLLTPGKt 369
Cdd:PHA03307  321 SRESSSSSTS-----SSSESSRGAAVSpGPSPSRSPSPSRPPP-----PADPSSPRKR-----PRPSRAPSSPAASAGR- 384

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   370 plGTPAMNMATPTPGHLMSMTPEQLQAWRwereidERNRPLTDEELDAMFPEGYKVL-----------PPPAGYV----- 433
Cdd:PHA03307  385 --PTRRRARAAVAGRARRRDATGRFPAGR------PRPSPLDAGAASGAFYARYPLLtpsgepwpgspPPPPGRVryggl 456

                         330       340
                  ....*....|....*....|....*.
gi 68366436   434 ----------P-IRTPARKLAATPTP 448
Cdd:PHA03307  457 gdsrpglwdaPeVREAAARYEASPGP 482
CTD smart01104
Spt5 C-terminal nonapeptide repeat binding Spt4; The C-terminal domain of the transcription ...
 178-298 3.87e-06

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: 47.13  E-value: 3.87e-06
                            10        20        30        40        50        60        70        80
                    ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436     178 AKAGELKAVNGSAASQAAAKRKRRWDQTADQTPSnstpkkvssWDQAdgGSETPGHTpGHTPSNSRwdeTPGRPKGSETP 257
Cdd:smart01104    9 ASGSKTPAWGSRTPGTAAGGAPTARGGSGSRTPA---------WGGA--GSRTPAWG-GAGPTGSR---TPAWGGASAWG 73

                            90       100       110       120
                    ....*....|....*....|....*....|....*....|....*..
gi 68366436     258 --GATPSTRMWEPTPSHTPaGAATPG----RDTPGHATPGHGGATSS 298
Cdd:smart01104   74 nkSSEGSASSWAAGPGGAY-GAPTPGyggtPSAYGPATPGGGAMAGS 119
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 189-473 1.68e-05

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 49.40  E-value: 1.68e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   189 SAASQAAAKRKRRWDqtaDQTPSNST------PKKVSSWDQADGGSETPGHTPGHTPSNSRWDETPGRPKGSETPGATPS 262
Cdd:PHA03307   55 VVAGAAACDRFEPPT---GPPPGPGTeapaneSRSTPTWSLSTLAPASPAREGSPTPPGPSSPDPPPPTPPPASPPPSPA 131

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   263 TRMWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRKNRWDETPKTERETPGHGSGWAETPrtdrgdesvGETPTPGA 342
Cdd:PHA03307  132 PDLSEMLRPVGSPGPPPAASPPAAGASPAAVASDAASSRQAALPLSSPEETARAPSSPPAEPP---------PSTPPAAA 202

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   343 SKRKSRWDETPASQMGSSTPLltPGKTPlgtpamnmATPTPGHLMSMTPEQLQAWRWEREiDERNRP---LTDEELDAMF 419
Cdd:PHA03307  203 SPRPPRRSSPISASASSPAPA--PGRSA--------ADDAGASSSDSSSSESSGCGWGPE-NECPLPrpaPITLPTRIWE 271

                         250       260       270       280       290
                  ....*....|....*....|....*....|....*....|....*....|....
gi 68366436   420 PEGYKVLPPPAGYVPIRTPARKLAATPTPIGGMTGFHMQTEDRSMKQVNDQPSG 473
Cdd:PHA03307  272 ASGWNGPSSRPGPASSSSSPRERSPSPSPSSPGSGPAPSSPRASSSSSSSRESS 325
PHA03378 PHA03378
EBNA-3B; Provisional
 200-460 2.72e-05

EBNA-3B; Provisional


Pssm-ID: 223065 [Multi-domain]  Cd Length: 991  Bit Score: 48.91  E-value: 2.72e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   200 RRWDQTADQTPSNSTPKKVSSWDQAdgGSETPGHTP--GHTPSNSRWDETPGRPKGSETPGATPSTRM-WEPTPSHTPA- 275
Cdd:PHA03378  622 RQWPMPLRPIPMRPLRMQPITFNVL--VFPTPHQPPqvEITPYKPTWTQIGHIPYQPSPTGANTMLPIqWAPGTMQPPPr 699

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   276 ------------GAATPGRDTPGHATPGHGGATSSVRKNRWDETPKTERETPGHGSGWAETPRTDRGDESVGETPTPgas 343
Cdd:PHA03378  700 aptpmrppaappGRAQRPAAATGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGRARPPAAAPGAPTP--- 776

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   344 krksrwdeTPASQMGsSTPLLTP--GKTPLGTPamnMATPTPGHLM--SMTPEQLQAWRWEREI----DERNRPLTD--- 412
Cdd:PHA03378  777 --------QPPPQAP-PAPQQRPrgAPTPQPPP---QAGPTSMQLMprAAPGQQGPTKQILRQLltggVKRGRPSLKkpa 844

                         250       260       270       280       290       300
                  ....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   413 --EELDAMFPE-------GYKVLPPPAGYVPIRTPA---RKLaATPTPIGGMTGFHMQTE 460
Cdd:PHA03378  845 alERQAAAGPTpspgsgtSDKIVQAPVFYPPVLQPIqvmRQL-GSVRAAAASTVTQAPTE 903
PHA03247 PHA03247
large tegument protein UL36; Provisional
 224-454 8.50e-05

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 47.24  E-value: 8.50e-05
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   224 ADGGSETPGHTPGHTPSNSrwdETPGRPKGS----ETPGATPSTRMW---------------EPTPSHTPAG-AATPGRD 283
Cdd:PHA03247 2491 AAGAAPDPGGGGPPDPDAP---PAPSRLAPAilpdEPVGEPVHPRMLtwirgleelasddagDPPPPLPPAApPAAPDRS 2567

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   284 TP-GHATPGHGGATSSVRKNRWDETPKTERetpghgsgwAETPRTDRGDESVGETPTPgASKRKSRWDETPASQMGSSTP 362
Cdd:PHA03247 2568 VPpPRPAPRPSEPAVTSRARRPDAPPQSAR---------PRAPVDDRGDPRGPAPPSP-LPPDTHAPDPPPPSPSPAANE 2637

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   363 LLTPGKTPLGTPAMNMATPTPGHLmSMTPEQLQAWRWEREIDERNRPLTDEELDAMFPEGYKVLPPPAGYVPIRTPARKL 442
Cdd:PHA03247 2638 PDPHPPPTVPPPERPRDDPAPGRV-SRPRRARRLGRAAQASSPPQRPRRRAARPTVGSLTSLADPPPPPPTPEPAPHALV 2716

                         250
                  ....*....|..
gi 68366436   443 AATPTPIGGMTG 454
Cdd:PHA03247 2717 SATPLPPGPAAA 2728
PHA03247 PHA03247
large tegument protein UL36; Provisional
 189-448 1.81e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 46.08  E-value: 1.81e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   189 SAASQAAAKRKRRWDQTADQTPSNSTPKKVSSWDQADGGSETPGHTPGHTPSNSrwDETPGRPKGSETPgATPSTRMWEP 268
Cdd:PHA03247 2770 APPAAPAAGPPRRLTRPAVASLSESRESLPSPWDPADPPAAVLAPAAALPPAAS--PAGPLPPPTSAQP-TAPPPPPGPP 2846

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   269 TPSHTPAGAATPGRDTPGHATPGHGGATSSVRKNrwdetPKTERetpghgsgwAETPRTDRGDESVGETPTPGASKRksr 348
Cdd:PHA03247 2847 PPSLPLGGSVAPGGDVRRRPPSRSPAAKPAAPAR-----PPVRR---------LARPAVSRSTESFALPPDQPERPP--- 2909

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   349 wdeTPASQMgSSTPLLTPGKTPLGTPAMnmatPTPGhlmsMTPEQLQAWRWEREIDERNRPLTDEELDAMFPEGYKVlpp 428
Cdd:PHA03247 2910 ---QPQAPP-PPQPQPQPPPPPQPQPPP----PPPP----RPQPPLAPTTDPAGAGEPSGAVPQPWLGALVPGRVAV--- 2974

                         250       260
                  ....*....|....*....|
gi 68366436   429 PAGYVPIRTPARKLAATPTP 448
Cdd:PHA03247 2975 PRFRVPQPAPSREAPASSTP 2994
PHA03247 PHA03247
large tegument protein UL36; Provisional
 190-447 3.35e-04

large tegument protein UL36; Provisional


Pssm-ID: 223021 [Multi-domain]  Cd Length: 3151  Bit Score: 45.31  E-value: 3.35e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   190 AASQAAAKRKRRWDQTADQTPSNSTPKK----------VSSWDQADGGSETPGHTPGHTPSNSRWDETPGRPKGSETPGA 259
Cdd:PHA03247 2655 DPAPGRVSRPRRARRLGRAAQASSPPQRprrraarptvGSLTSLADPPPPPPTPEPAPHALVSATPLPPGPAAARQASPA 2734

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   260 TPSTrmwePTPSHTPAGAATPGRDTPGHATPGHGGATSSvrknrwdetpktereTPGHGSGWAETPRTdrgdesvgeTPT 339
Cdd:PHA03247 2735 LPAA----PAPPAVPAGPATPGGPARPARPPTTAGPPAP---------------APPAAPAAGPPRRL---------TRP 2786

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   340 PGASKRKSRwDETPASQMGSSTPLLTPGKTPLGTPAMNMATPTPghlmsMTPEQLQAwrwereiderNRPLTDEELDAMF 419
Cdd:PHA03247 2787 AVASLSESR-ESLPSPWDPADPPAAVLAPAAALPPAASPAGPLP-----PPTSAQPT----------APPPPPGPPPPSL 2850

                         250       260
                  ....*....|....*....|....*...
gi 68366436   420 PEGYKVLppPAGYVPIRTPARKLAATPT 447
Cdd:PHA03247 2851 PLGGSVA--PGGDVRRRPPSRSPAAKPA 2876
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 223-448 7.34e-04

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 43.82  E-value: 7.34e-04
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   223 QADGGSETPGHTPGHTPSNSRWDETPGRPKGSETPGAtpstrmwepTPSHTPAGAATPGRDTPGHATPGHGGATSSVRkn 302
Cdd:PRK07764  587 VVGPAPGAAGGEGPPAPASSGPPEEAARPAAPAAPAA---------PAAPAPAGAAAAPAEASAAPAPGVAAPEHHPK-- 655

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   303 rwdetpKTERETPGHGSGWAETPRTDRGDESVGETPTPGAskrkSRWDETPASQMGSSTPLLTPGKTPLGTPAMNMATPT 382
Cdd:PRK07764  656 ------HVAVPDASDGGDGWPAKAGGAAPAAPPPAPAPAA----PAAPAGAAPAQPAPAPAATPPAGQADDPAAQPPQAA 725

                         170       180       190       200       210       220
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 68366436   383 pghlmsmtpeqlQAWRWEREIDERNRPLTDEELDAMFPEGYKVLPPPAGYVPIRTPArklAATPTP 448
Cdd:PRK07764  726 ------------QGASAPSPAADDPVPLPPEPDDPPDPAGAPAQPPPPPAPAPAAAP---AAAPPP 776
HEAT_EZ pfam13513
HEAT-like repeat; The HEAT repeat family is related to armadillo/beta-catenin-like repeats ...
 998-1053 1.07e-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: 38.50  E-value: 1.07e-03
                           10        20        30        40        50
                   ....*....|....*....|....*....|....*....|....*....|....*.
gi 68366436    998 PEVLGSILGALKAIVNViGMHKMTPPIKDLLPRLTPILKNRHEKVQENCIDLVGRI 1053
Cdd:pfam13513    1 WRVREAAALALGSLAEG-GPDLLAPAVPELLPALLPLLNDDSDLVREAAAWALGRL 55
PHA03307 PHA03307
transcriptional regulator ICP4; Provisional
 189-346 1.13e-03

transcriptional regulator ICP4; Provisional


Pssm-ID: 223039 [Multi-domain]  Cd Length: 1352  Bit Score: 43.62  E-value: 1.13e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   189 SAASQAAAKRKRRWDQTAD-QTPSNSTPKKVSSWDQADGGSETPGHT--PGHTPSNSRWDETPGRPKGSETPGATPSTRM 265
Cdd:PHA03307  790 VRAEAAFRRPGRLRRSGPAaDAASRTASKRKSRSHTPDGGSESSGPArpPGAAARPPPARSSESSKSKPAAAGGRARGKN 869

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   266 wEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRKNRWDETPKTER---ETPGHGSGWAETPRtdrgdesvGE--TPTP 340
Cdd:PHA03307  870 -GRRRPRPPEPRARPGAAAPPKAAAAAPPAGAPAPRPRPAPRVKLGPmppGGPDPRGGFRRVPP--------GDlhTPAP 940


                  ....*.
gi 68366436   341 GASKRK 346
Cdd:PHA03307  941 SAAALA 946
PRK07764 PRK07764
DNA polymerase III subunits gamma and tau; Validated
 185-417 2.16e-03

DNA polymerase III subunits gamma and tau; Validated


Pssm-ID: 236090 [Multi-domain]  Cd Length: 824  Bit Score: 42.28  E-value: 2.16e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   185 AVNGSAASQAAAKRKRRWDQTADQTPSNSTPKKVSSWDQADGGSETPGHTPGHTPSNSRWDETPGRPKGSETPGATPSTR 264
Cdd:PRK07764  604 ASSGPPEEAARPAAPAAPAAPAAPAPAGAAAAPAEASAAPAPGVAAPEHHPKHVAVPDASDGGDGWPAKAGGAAPAAPPP 683

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   265 MWEPTPSHTPAGAATPGRDTPGHATPGHGGATSSVRKNRwdetpkteretpghGSGWAETPRTDRGDESVGETPTPGAsk 344
Cdd:PRK07764  684 APAPAAPAAPAGAAPAQPAPAPAATPPAGQADDPAAQPP--------------QAAQGASAPSPAADDPVPLPPEPDD-- 747

                         170       180       190       200       210       220       230
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 68366436   345 rksrwDETPASQMGSSTPLLTPGKTPLGTPAMNMATPTPGHLMSMTPEQLQAWRWEREIDERNRPLTDEELDA 417
Cdd:PRK07764  748 -----PPDPAGAPAQPPPPPAPAPAAAPAAAPPPSPPSEEEEMAEDDAPSMDDEDRRDAEEVAMELLEEELGA 815
dnaA PRK14086
chromosomal replication initiator protein DnaA;
203-384 4.36e-03

chromosomal replication initiator protein DnaA;


Pssm-ID: 237605 [Multi-domain]  Cd Length: 617  Bit Score: 41.35  E-value: 4.36e-03
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   203 DQTADQTPSNSTPKKVSSWDQ--ADGGSETPGHtPGHTPSnsrwDETPGRPKGSETPGATPS--TRMWEPTPSHTPAGAA 278
Cdd:PRK14086   89 DPSAGEPAPPPPHARRTSEPElpRPGRRPYEGY-GGPRAD----DRPPGLPRQDQLPTARPAypAYQQRPEPGAWPRAAD 163

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 68366436   279 TPGRDTPGHATPG---HGGATSSVR-KNRWDETPKTERETPGHGSGWAETPRTD----RGDESVGETPTPGASKRKSRWD 350
Cdd:PRK14086  164 DYGWQQQRLGFPPrapYASPASYAPeQERDREPYDAGRPEYDQRRRDYDHPRPDwdrpRRDRTDRPEPPPGAGHVHRGGP 243

                         170       180       190
                  ....*....|....*....|....*....|....
gi 68366436   351 ETPASQMGSSTPLLTPGKTPLgtPAMNMATPTPG 384
Cdd:PRK14086  244 GPPERDDAPVVPIRPSAPGPL--AAQPAPAPGPG 275
 
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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