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Conserved domains on  [gi|1336472915|gb|AUV64344|]
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DNA-dependent RNA polymerase II second largest subunit, partial [[Candida] auris]

Protein Classification

DNA-directed RNA polymerase subunit B family protein( domain architecture ID 1000145)

DNA-directed RNA polymerase subunit B family protein similar to fungal DNA-directed RNA polymerase II subunit RPB2

CATH:  3.90.1110.10|3.90.1070.20
EC:  2.7.7.6
Gene Ontology:  GO:0003899|GO:0000428|GO:0008270|GO:0003677|GO:0006351
PubMed:  11839495

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
Ricin_B_lectin super family cl47023
Ricin-type beta-trefoil lectin domain;
12-337 1.11e-91

Ricin-type beta-trefoil lectin domain;


The actual alignment was detected with superfamily member PRK08565:

Pssm-ID: 481363 [Multi-domain]  Cd Length: 1103  Bit Score: 295.71  E-value: 1.11e-91
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   12 NLTLAVKSQTITDGLRYSLATGNWGeqkkamSARAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLV 91
Cdd:PRK08565   372 DLRAIVRPDIITERIRHALATGNWV------GGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRI 445

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   92 CPAETPEGQACGLVKNLSLMTCISVGTASEPILYFLEEWGMEPLEDYVPSNSPDCTRVFVNGVWVGTHREPAQLVDTMRR 171
Cdd:PRK08565   446 CPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRE 525

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  172 LRRRGDIAPEVSI--IRDIREREFKIFTDAGRVYRPLFIVDDdpesetkGELVLQKEHIHKLMNSEydeydddpsashYT 249
Cdd:PRK08565   526 LRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLIVVEN-------GKPKLTREHVEKLKKGE------------LT 586

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  250 WSSLVNDGVVEYVDAEEEETIMIAMTPEDleasksslsetqqkslqmeeqdldpakrikptyVSSTHtfTHCEIHPSMIL 329
Cdd:PRK08565   587 FDDLVKMGVIEYLDAEEEENAYVALDPED---------------------------------LTPEH--THLEIWPPAIL 631


                   ....*...
gi 1336472915  330 GVAASIIP 337
Cdd:PRK08565   632 GITASIIP 639
 
Name Accession Description Interval E-value
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 12-337 1.11e-91

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 295.71  E-value: 1.11e-91
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   12 NLTLAVKSQTITDGLRYSLATGNWGeqkkamSARAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLV 91
Cdd:PRK08565   372 DLRAIVRPDIITERIRHALATGNWV------GGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRI 445

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   92 CPAETPEGQACGLVKNLSLMTCISVGTASEPILYFLEEWGMEPLEDYVPSNSPDCTRVFVNGVWVGTHREPAQLVDTMRR 171
Cdd:PRK08565   446 CPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRE 525

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  172 LRRRGDIAPEVSI--IRDIREREFKIFTDAGRVYRPLFIVDDdpesetkGELVLQKEHIHKLMNSEydeydddpsashYT 249
Cdd:PRK08565   526 LRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLIVVEN-------GKPKLTREHVEKLKKGE------------LT 586

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  250 WSSLVNDGVVEYVDAEEEETIMIAMTPEDleasksslsetqqkslqmeeqdldpakrikptyVSSTHtfTHCEIHPSMIL 329
Cdd:PRK08565   587 FDDLVKMGVIEYLDAEEEENAYVALDPED---------------------------------LTPEH--THLEIWPPAIL 631


                   ....*...
gi 1336472915  330 GVAASIIP 337
Cdd:PRK08565   632 GITASIIP 639
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-115 1.54e-47

RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.


Pssm-ID: 238353 [Multi-domain]  Cd Length: 866  Bit Score: 171.60  E-value: 1.54e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   1 MQRCVENDKEFNLTLAVKSQTITDGLRYSLATGNWGEQKKAMSaRAGVSQVLNRYTYSSTLSHLRRTNT-PIGRDGKIAK 79
Cdd:cd00653   267 LQKQLSKKKDLTPQLLINSKPITSGIKEFLATGNWGSKRFLMQ-RSGLSQVLDRLNPLSELSHKRRISSlGLFRERKGFE 345

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1336472915  80 PRQLHNTHWGLVCPAETPEGQACGLVKNLSLMTCIS 115
Cdd:cd00653   346 VRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS 381
RNA_pol_Rpb2_4 pfam04566
RNA polymerase Rpb2, domain 4; RNA polymerases catalyze the DNA dependent polymerization of ...
 149-210 4.46e-35

RNA polymerase Rpb2, domain 4; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 4, is also known as the external 2 domain.


Pssm-ID: 428012 [Multi-domain]  Cd Length: 62  Bit Score: 122.09  E-value: 4.46e-35
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1336472915 149 VFVNGVWVGTHREPAQLVDTMRRLRRRGDIAPEVSIIRDIREREFKIFTDAGRVYRPLFIVD 210
Cdd:pfam04566   1 VFLNGNLIGVHRDPEELVETLRKLRRSGKISEEVSIVRDIREKEVRINTDGGRVCRPLIIVE 62
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 44-337 7.98e-18

DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 439855 [Multi-domain]  Cd Length: 1001  Bit Score: 84.39  E-value: 7.98e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   44 ARAGVSQVLNRYTYSSTLSHLRRTNT----PIGRDgkiaKP----RQLHNTHWGLVCPAETPEGQACGLVKNLSLMTCIS 115
Cdd:COG0085    367 GSSQLSQFMDQTNPLSELTHKRRLSAlgpgGLSRE----RAgfevRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVN 442

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  116 vgtasepilyfleewgmepledyvpsnspdctrvfvngvwvgthrepaqlvdtmrrlrrrgdiapevsiirdirerEFki 195
Cdd:COG0085    443 ----------------------------------------------------------------------------EY-- 444

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  196 ftdaGRVYRPLFIVDDdpesetkgelvlqkehihklmnseydeydddpsashytwsSLVNDGvVEYVDAEEEETIMIAMT 275
Cdd:COG0085    445 ----GFIETPYRKVEN----------------------------------------GKVTDE-IEYLTADEEENYYIAQA 479

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1336472915  276 PEDLEASKSSLSETQQKSLQMEEQDLDPAKrikptyvssthtFTHCEIHPSMILGVAASIIP 337
Cdd:COG0085    480 NAPLDEDGNFLEERVLVRYRGEEVLVPPEE------------VDYMDVSPKQIVSVATSLIP 529
 
Name Accession Description Interval E-value
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 12-337 1.11e-91

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 295.71  E-value: 1.11e-91
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   12 NLTLAVKSQTITDGLRYSLATGNWGeqkkamSARAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLV 91
Cdd:PRK08565   372 DLRAIVRPDIITERIRHALATGNWV------GGRTGVSQLLDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRI 445

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   92 CPAETPEGQACGLVKNLSLMTCISVGTASEPILYFLEEWGMEPLEDYVPSNSPDCTRVFVNGVWVGTHREPAQLVDTMRR 171
Cdd:PRK08565   446 CPFETPEGPNCGLVKNLALMAQISVGVDEEEVEEILYELGVVPVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRE 525

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  172 LRRRGDIAPEVSI--IRDIREREFKIFTDAGRVYRPLFIVDDdpesetkGELVLQKEHIHKLMNSEydeydddpsashYT 249
Cdd:PRK08565   526 LRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLIVVEN-------GKPKLTREHVEKLKKGE------------LT 586

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  250 WSSLVNDGVVEYVDAEEEETIMIAMTPEDleasksslsetqqkslqmeeqdldpakrikptyVSSTHtfTHCEIHPSMIL 329
Cdd:PRK08565   587 FDDLVKMGVIEYLDAEEEENAYVALDPED---------------------------------LTPEH--THLEIWPPAIL 631


                   ....*...
gi 1336472915  330 GVAASIIP 337
Cdd:PRK08565   632 GITASIIP 639
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-115 1.54e-47

RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Each RNA polymerase complex contains two related members of this family, in each case they are the two largest subunits.The clamp is a mobile structure that grips DNA during elongation.


Pssm-ID: 238353 [Multi-domain]  Cd Length: 866  Bit Score: 171.60  E-value: 1.54e-47
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   1 MQRCVENDKEFNLTLAVKSQTITDGLRYSLATGNWGEQKKAMSaRAGVSQVLNRYTYSSTLSHLRRTNT-PIGRDGKIAK 79
Cdd:cd00653   267 LQKQLSKKKDLTPQLLINSKPITSGIKEFLATGNWGSKRFLMQ-RSGLSQVLDRLNPLSELSHKRRISSlGLFRERKGFE 345

                          90       100       110
                  ....*....|....*....|....*....|....*.
gi 1336472915  80 PRQLHNTHWGLVCPAETPEGQACGLVKNLSLMTCIS 115
Cdd:cd00653   346 VRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS 381
PRK07225 PRK07225
DNA-directed RNA polymerase subunit B'; Validated
 147-337 5.82e-37

DNA-directed RNA polymerase subunit B'; Validated


Pssm-ID: 235972 [Multi-domain]  Cd Length: 605  Bit Score: 139.71  E-value: 5.82e-37
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915 147 TRVFVNGVWVGTHREPAQLVDTMRRLRRRGDIAPEVSIIRDIREREFKIFTDAGRVYRPLFIVDDdpesetkGELVLQKE 226
Cdd:PRK07225    5 AKVYVNGKLIGTHDDPEELVEEIREARRSGEISEEVNVSYKEETNEVIINTDAGRARRPLIVVEN-------GEPLLTEE 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915 227 HIHKLMNSEydeydddpsashYTWSSLVNDGVVEYVDAEEEETIMIAMTPEDLeasksslsetqqkslqmeeqdldpakr 306
Cdd:PRK07225   78 HIEKLKNGE------------LTFDDLVKQGVIEYLDAEEEENAYIAVYEEDL--------------------------- 118

                         170       180       190
                  ....*....|....*....|....*....|.
gi 1336472915 307 ikptyvssTHTFTHCEIHPSMILGVAASIIP 337
Cdd:PRK07225  119 --------TEEHTHLEIDPSLILGIGAGMIP 141
PRK09606 PRK09606
DNA-directed RNA polymerase subunit B''; Validated
 9-135 4.08e-35

DNA-directed RNA polymerase subunit B''; Validated


Pssm-ID: 236587 [Multi-domain]  Cd Length: 494  Bit Score: 133.54  E-value: 4.08e-35
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   9 KEFNLTLAVKSQTITDGLRYSLATGNWgeqkkaMSARAGVSQVLNRYTYSSTLSHLRRTNTPIGRDGKIAKPRQLHNTHW 88
Cdd:PRK09606  372 RELSIKTAVRSDVLTERLEHAMATGNW------VGGRTGVSQLLDRTDYMATLSHLRRVVSPLSRSQPHFEARDLHPTQW 445

                          90       100       110       120
                  ....*....|....*....|....*....|....*....|....*..
gi 1336472915  89 GLVCPAETPEGQACGLVKNLSLMTCISVGTASEPILYFLEEWGMEPL 135
Cdd:PRK09606  446 GRICPSETPEGPNCGLVKNFAQMVEISTGEDEEEVKEILKELGVEPE 492
RNA_pol_Rpb2_4 pfam04566
RNA polymerase Rpb2, domain 4; RNA polymerases catalyze the DNA dependent polymerization of ...
 149-210 4.46e-35

RNA polymerase Rpb2, domain 4; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 4, is also known as the external 2 domain.


Pssm-ID: 428012 [Multi-domain]  Cd Length: 62  Bit Score: 122.09  E-value: 4.46e-35
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1336472915 149 VFVNGVWVGTHREPAQLVDTMRRLRRRGDIAPEVSIIRDIREREFKIFTDAGRVYRPLFIVD 210
Cdd:pfam04566   1 VFLNGNLIGVHRDPEELVETLRKLRRSGKISEEVSIVRDIREKEVRINTDGGRVCRPLIIVE 62
RNA_pol_Rpb2_3 pfam04565
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ...
 50-112 6.92e-31

RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 3, s also known as the fork domain and is proximal to catalytic site.


Pssm-ID: 428011 [Multi-domain]  Cd Length: 67  Bit Score: 111.46  E-value: 6.92e-31
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1336472915  50 QVLNRYTYSSTLSHLRRTNTPIG---RDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMT 112
Cdd:pfam04565   1 QVLDRTNYLSTLSHLRRVNSPRGglfREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYA 66
RNA_pol_Rpb2_5 pfam04567
RNA polymerase Rpb2, domain 5; RNA polymerases catalyze the DNA dependent polymerization of ...
 250-325 5.21e-23

RNA polymerase Rpb2, domain 5; RNA polymerases catalyze the DNA dependent polymerization of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). Domain 5, is also known as the external 2 domain.


Pssm-ID: 428013 [Multi-domain]  Cd Length: 53  Bit Score: 89.91  E-value: 5.21e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1336472915 250 WSSLVNDGVVEYVDAEEEETIMIAMTPEDLEASKSSLSETqqkslqmeeqdldpakrikptyvSSTHTFTHCEIHP 325
Cdd:pfam04567   1 WSDLLREGVIEYLDAEEEETSMIAMTPEDLEESSREEREG-----------------------PYAHTYTHCEIHP 53
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 44-337 7.98e-18

DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA polymerase, beta subunit/140 kD subunit is part of the Pathway/BioSystem: RNA polymerase


Pssm-ID: 439855 [Multi-domain]  Cd Length: 1001  Bit Score: 84.39  E-value: 7.98e-18
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   44 ARAGVSQVLNRYTYSSTLSHLRRTNT----PIGRDgkiaKP----RQLHNTHWGLVCPAETPEGQACGLVKNLSLMTCIS 115
Cdd:COG0085    367 GSSQLSQFMDQTNPLSELTHKRRLSAlgpgGLSRE----RAgfevRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVN 442

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  116 vgtasepilyfleewgmepledyvpsnspdctrvfvngvwvgthrepaqlvdtmrrlrrrgdiapevsiirdirerEFki 195
Cdd:COG0085    443 ----------------------------------------------------------------------------EY-- 444

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915  196 ftdaGRVYRPLFIVDDdpesetkgelvlqkehihklmnseydeydddpsashytwsSLVNDGvVEYVDAEEEETIMIAMT 275
Cdd:COG0085    445 ----GFIETPYRKVEN----------------------------------------GKVTDE-IEYLTADEEENYYIAQA 479

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1336472915  276 PEDLEASKSSLSETQQKSLQMEEQDLDPAKrikptyvssthtFTHCEIHPSMILGVAASIIP 337
Cdd:COG0085    480 NAPLDEDGNFLEERVLVRYRGEEVLVPPEE------------VDYMDVSPKQIVSVATSLIP 529
PRK09603 PRK09603
DNA-directed RNA polymerase subunit beta/beta';
48-112 4.92e-07

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 181983 [Multi-domain]  Cd Length: 2890  Bit Score: 51.46  E-value: 4.92e-07
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1336472915   48 VSQVLNRYTYSSTLSHLRRTNTpIGRDGKIA-----KPRQLHNTHWGLVCPAETPEGQACGLVKNLSLMT 112
Cdd:PRK09603   525 LSQFMDQTNPLSEVTHKRRLSA-LGEGGLVKdrvgfEARDVHPTHYGRICPIETPEGQNIGLINTLSTFT 593
PRK14844 PRK14844
DNA-directed RNA polymerase subunit beta/beta';
48-110 1.84e-06

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 173305 [Multi-domain]  Cd Length: 2836  Bit Score: 50.01  E-value: 1.84e-06
                           10        20        30        40        50        60
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*..
gi 1336472915   48 VSQVLNRYTYSSTLSHLRRTNT--PIG--RDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLSL 110
Cdd:PRK14844   532 LSQFMDQTNPLSEITHKRRLSAlgPGGltRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINSLAI 598
rpoB CHL00207
RNA polymerase beta subunit; Provisional
 48-116 7.16e-06

RNA polymerase beta subunit; Provisional


Pssm-ID: 214397 [Multi-domain]  Cd Length: 1077  Bit Score: 47.78  E-value: 7.16e-06
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1336472915   48 VSQVLNRYTYSSTLSHLRRTNT--PIGRDG-KIAKP-RQLHNTHWGLVCPAETPEGQACGLVKnlSLMTCISV 116
Cdd:CHL00207   366 LSQYMDQTNPLSELTHKRRISIlgPGGLDKdRISFAvRDIHPSHYGRICPIETPEGPNCGLIG--SLATNARI 436
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 81-109 1.11e-04

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 43.94  E-value: 1.11e-04
                           10        20
                   ....*....|....*....|....*....
gi 1336472915   81 RQLHNTHWGLVCPAETPEGQACGLVKNLS 109
Cdd:PRK00405   469 RDVHPTHYGRICPIETPEGPNIGLINSLA 497
rpoB CHL00001
RNA polymerase beta subunit
 49-117 6.05e-04

RNA polymerase beta subunit


Pssm-ID: 214330 [Multi-domain]  Cd Length: 1070  Bit Score: 41.81  E-value: 6.05e-04
                           10        20        30        40        50        60        70
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|...
gi 1336472915   49 SQVLNRYTYSSTLSHLRRTNT--PIGRDGKIA--KPRQLHNTHWGLVCPAETPEGQACGLVKnlSLMTCISVG 117
Cdd:CHL00001   375 SQFLDQTNPLTEIVHGRKLSSlgPGGLTGRTAsfRVRDIHPSHYGRICPIDTSEGINAGLIG--SLAIHARIG 445
 
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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