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Conserved domains on  [gi|1352809652|gb|AVJ51966|]
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DNA-dependent RNA polymerase II second largest subunit, partial [Penicillium expansum]

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
SCOP:  4003708

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;
1-610 0e+00

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: 648.56  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    1 LSRYTFSSSLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITVGTPAEPIVDfmIQRN 80
Cdd:PRK08565   406 LDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEE--ILYE 483

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   81 MEV--LEEFEPQVTPNATKVFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSL--IRDIREREFKIFTDTGRVCRPLF 156
Cdd:PRK08565   484 LGVvpVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRELRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLI 563

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  157 VIDNdpksensGGLVLNKEHIRKLeadkdlppdlgpeerREQYFGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrq 236
Cdd:PRK08565   564 VVEN-------GKPKLTREHVEKL---------------KKGELTFDDLVKMGVIEYLDAEEEENAYVALDPEDL----- 616

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  237 lqagyaLPEdetsdpnkrvrsilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQR 316
Cdd:PRK08565   617 ------TPE------------------HT--HLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIR 670

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  317 METMANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEK--MV 394
Cdd:PRK08565   671 TDTRGHLLHYPQRPLVQTRALEIIGYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERkyPG 750

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  395 GLQvvERFEKPMRiDTLGMR-KGTYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKahTKIDVSTPLRS 471
Cdd:PRK08565   751 GQE--DKIEIPEP-NVRGYRgEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPprFLEELEELSLGLQ--ERRDTSVTVRH 825

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  472 TENGIVDQVLVSTGNDDLKFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTI 551
Cdd:PRK08565   826 GEKGIVDTVLITESPEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTV 905

                          570       580       590       600       610
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1352809652  552 AHLIECQLSKVSALRGFEGDATPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKMV 610
Cdd:PRK08565   906 GQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIK 964
 
Name Accession Description Interval E-value
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 1-610 0e+00

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 648.56  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    1 LSRYTFSSSLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITVGTPAEPIVDfmIQRN 80
Cdd:PRK08565   406 LDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEE--ILYE 483

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   81 MEV--LEEFEPQVTPNATKVFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSL--IRDIREREFKIFTDTGRVCRPLF 156
Cdd:PRK08565   484 LGVvpVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRELRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLI 563

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  157 VIDNdpksensGGLVLNKEHIRKLeadkdlppdlgpeerREQYFGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrq 236
Cdd:PRK08565   564 VVEN-------GKPKLTREHVEKL---------------KKGELTFDDLVKMGVIEYLDAEEEENAYVALDPEDL----- 616

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  237 lqagyaLPEdetsdpnkrvrsilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQR 316
Cdd:PRK08565   617 ------TPE------------------HT--HLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIR 670

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  317 METMANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEK--MV 394
Cdd:PRK08565   671 TDTRGHLLHYPQRPLVQTRALEIIGYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERkyPG 750

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  395 GLQvvERFEKPMRiDTLGMR-KGTYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKahTKIDVSTPLRS 471
Cdd:PRK08565   751 GQE--DKIEIPEP-NVRGYRgEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPprFLEELEELSLGLQ--ERRDTSVTVRH 825

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  472 TENGIVDQVLVSTGNDDLKFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTI 551
Cdd:PRK08565   826 GEKGIVDTVLITESPEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTV 905

                          570       580       590       600       610
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1352809652  552 AHLIECQLSKVSALRGFEGDATPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKMV 610
Cdd:PRK08565   906 GQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIK 964
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-609 0e+00

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: 596.47  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   1 LSRYTFSSSLSHLRRTNT-PIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITvgtpaepivdfmiqr 79
Cdd:cd00653   317 LDRLNPLSELSHKRRISSlGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--------------- 381

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  80 nmevleefepqvtpnatkvfvngvwvgihrdpshlvttmqnlrrrnmishevslirdirerefkiftdtGRVCRPLFVID 159
Cdd:cd00653   382 ---------------------------------------------------------------------GRIERPYRIVE 392

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 160 NDpksensgglvlnkehirkleadkdlppdlgpeerreqyfgwdglvrsgaveyvdaeeeetimivmtpedleisrqlqa 239
Cdd:cd00653   393 KE------------------------------------------------------------------------------ 394

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 240 gyalpedetsdpnkrvrsilsqrahtWTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMET 319
Cdd:cd00653   395 --------------------------VTHIEISPSQILSVAASLIPFPEHNQSPRNLYQSNMQKQAVGTPALNQQYRMDT 448

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 320 MANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEKMVGLQVV 399
Cdd:cd00653   449 KLYLLLYPQKPLVGTGIEEYIAFGELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPE 528

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 400 ERFekpmRIDTLGMRKGTYDKLDEDGIVAPGVRVSGEDIIIGKTAPLAADAEELGQRTKAHTKIDVSTPLRSTENGIVDQ 479
Cdd:cd00653   529 EIT----RGDIPNVSEEKLKNLDEDGIIRPGARVEPGDILVGKITPKGETESTPIFGEKARDVRDTSLKYPGGEKGIVDD 604

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 480 VLVST---GNDDLKFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIE 556
Cdd:cd00653   605 VKIFSrelNDGGNKLVKVYIRQKRKPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLE 684

                         570       580       590       600       610
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1352809652 557 CQLSKVSALRGFEGDATPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKM 609
Cdd:cd00653   685 SLLGKAGALLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPL 737
rpoB_arch TIGR03670
DNA-directed RNA polymerase subunit B; This model represents the archaeal version of ...
 98-608 0e+00

DNA-directed RNA polymerase subunit B; This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.


Pssm-ID: 274713 [Multi-domain]  Cd Length: 599  Bit Score: 533.45  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  98 VFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSLIRDIREREFKIFTDTGRVCRPLFVIDNdpksensGGLVLNKEHI 177
Cdd:TIGR03670   1 VYLNGRLIGYHDDPEELVEEVRKLRRSGKLSQEVNVAYYEETNEVYINCDAGRIRRPLIVVEN-------GKPKLTREHV 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 178 RKLeadkdlppdlgpeerREQYFGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrqlqagyalpedeTSDpnkrvrs 257
Cdd:TIGR03670  74 EKL---------------KEGELTWDDLVKQGVIEYLDAEEEENAYIALDPEEL----------------TPE------- 115

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 258 ilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMETMANILYYPQKPLATTRSM 337
Cdd:TIGR03670 116 ------HT--HLEIDPSAILGIIASTIPYPEHNQSPRNTMGAAMAKQSLGLYAANYRIRLDTRGHLLHYPQKPLVKTRVL 187

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 338 EFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEKMVGLQVVERFEKPMRiDTLGMR-KG 416
Cdd:TIGR03670 188 ELIGYDDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLARSTFFRTYEAEERRYPGGQEDRFEIPEP-DVRGYRgEE 266

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 417 TYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKAhtKIDVSTPLRSTENGIVDQVLVSTGNDDLKFVKV 494
Cdd:TIGR03670 267 AYKHLDEDGIVYPEVEVKGGDVLIGKTSPprFLEELREFGLVTER--RRDTSVTVRHGEKGIVDKVIITETEEGNKLVKV 344

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 495 RMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATP 574
Cdd:TIGR03670 345 RVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTP 424

                         490       500       510
                  ....*....|....*....|....*....|....
gi 1352809652 575 FTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRK 608
Cdd:TIGR03670 425 FEGEPEEELRKELLKLGFKPDGKEVMYDGITGEK 458
RNA_pol_Rpb2_6 pfam00562
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ...
 280-609 4.98e-146

RNA polymerase Rpb2, domain 6; 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). This domain represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).


Pssm-ID: 459854 [Multi-domain]  Cd Length: 371  Bit Score: 426.95  E-value: 4.98e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 280 CASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMETMANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYS 359
Cdd:pfam00562   1 VASLIPFVDHNQSPRNTYQCAMGKQAMGIYTLNKFYRSDQNTYVLCYPQKPLVKTGAVEAGGFGELPLGQNAIVAVMSYT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 360 GYNQEDSVIMNQSSIDRGLFRSLFYRTYaDTEKMVGLQVVERFEKPmridtLGMRKGTYDKLDEDGIVAPGVRVSGEDII 439
Cdd:pfam00562  81 GYNQEDAIIINKSSVDRGFFTSIHIKEI-EARKTKLGPIEEITRDI-----PNVSEEALKKLDEDGIVRVGAEVKPGDIL 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 440 IGKTAP------LAADAEElgqrtKAHTKIDVSTPLRSTENGIVDQVLV-STGNDDLKFVKVRMRTTKIPQIGDKFASRH 512
Cdd:pfam00562 155 VGKVGPteltklLRAIFGE-----KARDVKDTSLKVPPGEEGVVDDVIVfELPPGGIKMVKVYIRQKRKPEVGDKFASRH 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 513 GQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATPFT--DVTVDSVSRLLREH 590
Cdd:pfam00562 230 GQKGVVSRILPQEDMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAALLGVFVDATPFDgaSTEVEDIGELLEKA 309

                         330
                  ....*....|....*....
gi 1352809652 591 GYQSRGFEVMFNGHTGRKM 609
Cdd:pfam00562 310 GYNYYGKEVLYDGRTGEPF 328
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 8-608 1.34e-114

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: 365.20  E-value: 1.34e-114
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    8 SSLSHLRRTNT----PIGRDgkiaKP----RQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITvgtpaepivdfmiqr 79
Cdd:COG0085    382 SELTHKRRLSAlgpgGLSRE----RAgfevRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVN--------------- 442

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   80 nmevleefepqvtpnatkvfvngvwvgihrdpshlvttmqnlrrrnmishevslirdirerEFkiftdtGRVCRPLFVID 159
Cdd:COG0085    443 -------------------------------------------------------------EY------GFIETPYRKVE 455

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  160 NdpksensgGLVLNKehirkleadkdlppdlgpeerreqyfgwdglvrsgaVEYVDAEEEETIMIVmtpedleisrqlQA 239
Cdd:COG0085    456 N--------GKVTDE------------------------------------IEYLTADEEENYYIA------------QA 479

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  240 GYALPED----ETSDPNKRVRSILSQRAHTWTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNfsq 315
Cdd:COG0085    480 NAPLDEDgnflEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPE--- 556

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  316 rmetmANILYYP--------------QKPLAttRSMEFLR------------FRELPAGQNAIVAIATYSGYNQEDSVIM 369
Cdd:COG0085    557 -----APLLHYPlqkfqrsnqgtcinQRPIV--RVGDRVEkgdvladgpatdNGELALGQNLLVAFMPWEGYNYEDAIII 629

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  370 NQSSIDRGLFRSLFYRTYadtekmvglQVVERfekpmriDT-LGMRKGT----------YDKLDEDGIVAPGVRVSGEDI 438
Cdd:COG0085    630 SERLVKDDVLTSIHIEEY---------EIEAR-------DTkLGPEEITrdipnvseeaLRNLDEDGIIRIGAEVKGGDI 693

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  439 IIGKTAP---LAADAEELGQR----TKAHTKIDVSTPLRSTENGIVDQVLVST--GNDDL-----KFVKVRMRTTKIPQI 504
Cdd:COG0085    694 LVGKVTPkgeTELTPEERLLRaifgEKAREVRDTSLRVPHGEKGKVIDVKVFSreEGDELppgvnKLVRVYVAQKRKIEV 773

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  505 GDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATPFTDVTVDSVS 584
Cdd:COG0085    774 GDKLAGRHGNKGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRRVATPVFDGAPEEEIR 853

                          650       660
                   ....*....|....*....|....
gi 1352809652  585 RLLREHGYQSRGFEVMFNGHTGRK 608
Cdd:COG0085    854 ELLEKAGLPPDGKEVLYDGRTGEP 877
 
Name Accession Description Interval E-value
PRK08565 PRK08565
DNA-directed RNA polymerase subunit B; Provisional
 1-610 0e+00

DNA-directed RNA polymerase subunit B; Provisional


Pssm-ID: 236291 [Multi-domain]  Cd Length: 1103  Bit Score: 648.56  E-value: 0e+00
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    1 LSRYTFSSSLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITVGTPAEPIVDfmIQRN 80
Cdd:PRK08565   406 LDRTNYLSTLSHLRRVVSPLSRGQPHFEARDLHGTQWGRICPFETPEGPNCGLVKNLALMAQISVGVDEEEVEE--ILYE 483

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   81 MEV--LEEFEPQVTPNATKVFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSL--IRDIREREFKIFTDTGRVCRPLF 156
Cdd:PRK08565   484 LGVvpVEEAREEEYISWSRVYLNGRLIGYHPDGEELAEKIRELRRSGKISDEVNVayIETGEINEVYVNCDSGRVRRPLI 563

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  157 VIDNdpksensGGLVLNKEHIRKLeadkdlppdlgpeerREQYFGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrq 236
Cdd:PRK08565   564 VVEN-------GKPKLTREHVEKL---------------KKGELTFDDLVKMGVIEYLDAEEEENAYVALDPEDL----- 616

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  237 lqagyaLPEdetsdpnkrvrsilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQR 316
Cdd:PRK08565   617 ------TPE------------------HT--HLEIWPPAILGITASIIPYPEHNQSPRNTYQAAMAKQSLGLYAANFRIR 670

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  317 METMANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEK--MV 394
Cdd:PRK08565   671 TDTRGHLLHYPQRPLVQTRALEIIGYNDRPAGQNAVVAVLSYTGYNIEDAIIMNKASIERGLARSTFFRTYETEERkyPG 750

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  395 GLQvvERFEKPMRiDTLGMR-KGTYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKahTKIDVSTPLRS 471
Cdd:PRK08565   751 GQE--DKIEIPEP-NVRGYRgEEYYRKLDEDGIVSPEVEVKGGDVLIGKTSPprFLEELEELSLGLQ--ERRDTSVTVRH 825

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  472 TENGIVDQVLVSTGNDDLKFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTI 551
Cdd:PRK08565   826 GEKGIVDTVLITESPEGNKLVKVRVRDLRIPELGDKFASRHGQKGVIGMLVPQEDMPFTEDGIVPDLIINPHAIPSRMTV 905

                          570       580       590       600       610
                   ....*....|....*....|....*....|....*....|....*....|....*....
gi 1352809652  552 AHLIECQLSKVSALRGFEGDATPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKMV 610
Cdd:PRK08565   906 GQLLESIAGKVAALEGRFVDATPFYGEPEEELRKELLKLGYKPDGTEVMYDGRTGEKIK 964
RNA_pol_B_RPB2 cd00653
RNA polymerase beta subunit. RNA polymerases catalyse the DNA dependent polymerization of RNA. ...
 1-609 0e+00

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: 596.47  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   1 LSRYTFSSSLSHLRRTNT-PIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITvgtpaepivdfmiqr 79
Cdd:cd00653   317 LDRLNPLSELSHKRRISSlGLFRERKGFEVRDLHPSHWGRICPIETPEGENCGLVKNLALMARIS--------------- 381

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  80 nmevleefepqvtpnatkvfvngvwvgihrdpshlvttmqnlrrrnmishevslirdirerefkiftdtGRVCRPLFVID 159
Cdd:cd00653   382 ---------------------------------------------------------------------GRIERPYRIVE 392

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 160 NDpksensgglvlnkehirkleadkdlppdlgpeerreqyfgwdglvrsgaveyvdaeeeetimivmtpedleisrqlqa 239
Cdd:cd00653   393 KE------------------------------------------------------------------------------ 394

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 240 gyalpedetsdpnkrvrsilsqrahtWTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMET 319
Cdd:cd00653   395 --------------------------VTHIEISPSQILSVAASLIPFPEHNQSPRNLYQSNMQKQAVGTPALNQQYRMDT 448

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 320 MANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEKMVGLQVV 399
Cdd:cd00653   449 KLYLLLYPQKPLVGTGIEEYIAFGELPLGQNAIVAVMSYSGYNFEDAIIINKSSVDRGFFRSIHYKKYEIELRKTKNGPE 528

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 400 ERFekpmRIDTLGMRKGTYDKLDEDGIVAPGVRVSGEDIIIGKTAPLAADAEELGQRTKAHTKIDVSTPLRSTENGIVDQ 479
Cdd:cd00653   529 EIT----RGDIPNVSEEKLKNLDEDGIIRPGARVEPGDILVGKITPKGETESTPIFGEKARDVRDTSLKYPGGEKGIVDD 604

                         490       500       510       520       530       540       550       560
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 480 VLVST---GNDDLKFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIE 556
Cdd:cd00653   605 VKIFSrelNDGGNKLVKVYIRQKRKPQIGDKFASRHGQKGVISKILPQEDMPFTEDGIPPDIILNPHGFPSRMTIGQLLE 684

                         570       580       590       600       610
                  ....*....|....*....|....*....|....*....|....*....|...
gi 1352809652 557 CQLSKVSALRGFEGDATPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKM 609
Cdd:cd00653   685 SLLGKAGALLGKFGDATPFDGAEEEDISELLGEAGLNYYGKEVLYDGRTGEPL 737
rpoB_arch TIGR03670
DNA-directed RNA polymerase subunit B; This model represents the archaeal version of ...
 98-608 0e+00

DNA-directed RNA polymerase subunit B; This model represents the archaeal version of DNA-directed RNA polymerase subunit B (rpoB) and is observed in all archaeal genomes.


Pssm-ID: 274713 [Multi-domain]  Cd Length: 599  Bit Score: 533.45  E-value: 0e+00
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  98 VFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSLIRDIREREFKIFTDTGRVCRPLFVIDNdpksensGGLVLNKEHI 177
Cdd:TIGR03670   1 VYLNGRLIGYHDDPEELVEEVRKLRRSGKLSQEVNVAYYEETNEVYINCDAGRIRRPLIVVEN-------GKPKLTREHV 73

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 178 RKLeadkdlppdlgpeerREQYFGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrqlqagyalpedeTSDpnkrvrs 257
Cdd:TIGR03670  74 EKL---------------KEGELTWDDLVKQGVIEYLDAEEEENAYIALDPEEL----------------TPE------- 115

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 258 ilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMETMANILYYPQKPLATTRSM 337
Cdd:TIGR03670 116 ------HT--HLEIDPSAILGIIASTIPYPEHNQSPRNTMGAAMAKQSLGLYAANYRIRLDTRGHLLHYPQKPLVKTRVL 187

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 338 EFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEKMVGLQVVERFEKPMRiDTLGMR-KG 416
Cdd:TIGR03670 188 ELIGYDDRPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLARSTFFRTYEAEERRYPGGQEDRFEIPEP-DVRGYRgEE 266

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 417 TYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKAhtKIDVSTPLRSTENGIVDQVLVSTGNDDLKFVKV 494
Cdd:TIGR03670 267 AYKHLDEDGIVYPEVEVKGGDVLIGKTSPprFLEELREFGLVTER--RRDTSVTVRHGEKGIVDKVIITETEEGNKLVKV 344

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 495 RMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATP 574
Cdd:TIGR03670 345 RVRDLRIPELGDKFASRHGQKGVIGMIVPQEDMPFTEDGIVPDLIINPHAIPSRMTVGQLLEMIAGKVAALEGRRVDGTP 424

                         490       500       510
                  ....*....|....*....|....*....|....
gi 1352809652 575 FTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRK 608
Cdd:TIGR03670 425 FEGEPEEELRKELLKLGFKPDGKEVMYDGITGEK 458
PRK07225 PRK07225
DNA-directed RNA polymerase subunit B'; Validated
 96-608 2.03e-171

DNA-directed RNA polymerase subunit B'; Validated


Pssm-ID: 235972 [Multi-domain]  Cd Length: 605  Bit Score: 500.64  E-value: 2.03e-171
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  96 TKVFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSLIRDIREREFKIFTDTGRVCRPLFVIDNdpksensGGLVLNKE 175
Cdd:PRK07225    5 AKVYVNGKLIGTHDDPEELVEEIREARRSGEISEEVNVSYKEETNEVIINTDAGRARRPLIVVEN-------GEPLLTEE 77

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 176 HIRKLEaDKDLppdlgpeerreqyfGWDGLVRSGAVEYVDAEEEETIMIVMTPEDLeisrqlqagyalpedeTSDpnkrv 255
Cdd:PRK07225   78 HIEKLK-NGEL--------------TFDDLVKQGVIEYLDAEEEENAYIAVYEEDL----------------TEE----- 121

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 256 rsilsqraHTwtHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMETMANILYYPQKPLATTR 335
Cdd:PRK07225  122 --------HT--HLEIDPSLILGIGAGMIPYPEHNASPRITMGAGMIKQSLGLPAANYKLRPDTRGHLLHYPQVPLVKTQ 191

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 336 SMEFLRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYADTEKMVGLQVVERFEKPMRiDTLGMR- 414
Cdd:PRK07225  192 TQEIIGFDERPAGQNFVVAVMSYEGYNIEDALIMNKASIERGLGRSHFFRTYEGEERRYPGGQEDRFEIPDK-DVRGYRg 270

                         330       340       350       360       370       380       390       400
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 415 KGTYDKLDEDGIVAPGVRVSGEDIIIGKTAP--LAADAEELGQRTKAhtKIDVSTPLRSTENGIVDQVLVSTGNDDLKFV 492
Cdd:PRK07225  271 EEAYRHLDEDGLVNPETEVKEGDVLIGKTSPprFLEEPDDFGISPEK--RRETSVTMRSGEEGIVDTVILTETEEGSRLV 348

                         410       420       430       440       450       460       470       480
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 493 KVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDA 572
Cdd:PRK07225  349 KVRVRDLRIPELGDKFASRHGQKGVIGLIVPQEDMPFTESGVVPDLIINPHAIPSRMTVGHVLEMIGGKVGSLEGRRVDG 428

                         490       500       510
                  ....*....|....*....|....*....|....*.
gi 1352809652 573 TPFTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRK 608
Cdd:PRK07225  429 TAFSGEDEEDLREALEKLGFEHTGKEVMYDGITGEK 464
RNA_pol_Rpb2_6 pfam00562
RNA polymerase Rpb2, domain 6; RNA polymerases catalyze the DNA dependent polymerization of ...
 280-609 4.98e-146

RNA polymerase Rpb2, domain 6; 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). This domain represents the hybrid binding domain and the wall domain. The hybrid binding domain binds the nascent RNA strand / template DNA strand in the Pol II transcription elongation complex. This domain contains the important structural motifs, switch 3 and the flap loop and binds an active site metal ion. This domain is also involved in binding to Rpb1 and Rpb3. Many of the bacterial members contain large insertions within this domain, as region known as dispensable region 2 (DRII).


Pssm-ID: 459854 [Multi-domain]  Cd Length: 371  Bit Score: 426.95  E-value: 4.98e-146
                          10        20        30        40        50        60        70        80
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 280 CASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNFSQRMETMANILYYPQKPLATTRSMEFLRFRELPAGQNAIVAIATYS 359
Cdd:pfam00562   1 VASLIPFVDHNQSPRNTYQCAMGKQAMGIYTLNKFYRSDQNTYVLCYPQKPLVKTGAVEAGGFGELPLGQNAIVAVMSYT 80

                          90       100       110       120       130       140       150       160
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 360 GYNQEDSVIMNQSSIDRGLFRSLFYRTYaDTEKMVGLQVVERFEKPmridtLGMRKGTYDKLDEDGIVAPGVRVSGEDII 439
Cdd:pfam00562  81 GYNQEDAIIINKSSVDRGFFTSIHIKEI-EARKTKLGPIEEITRDI-----PNVSEEALKKLDEDGIVRVGAEVKPGDIL 154

                         170       180       190       200       210       220       230       240
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 440 IGKTAP------LAADAEElgqrtKAHTKIDVSTPLRSTENGIVDQVLV-STGNDDLKFVKVRMRTTKIPQIGDKFASRH 512
Cdd:pfam00562 155 VGKVGPteltklLRAIFGE-----KARDVKDTSLKVPPGEEGVVDDVIVfELPPGGIKMVKVYIRQKRKPEVGDKFASRH 229

                         250       260       270       280       290       300       310       320
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652 513 GQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATPFT--DVTVDSVSRLLREH 590
Cdd:pfam00562 230 GQKGVVSRILPQEDMPFTEDGIPPDIILNPHGVPSRMTIGQLLETHLGKAAALLGVFVDATPFDgaSTEVEDIGELLEKA 309

                         330
                  ....*....|....*....
gi 1352809652 591 GYQSRGFEVMFNGHTGRKM 609
Cdd:pfam00562 310 GYNYYGKEVLYDGRTGEPF 328
RpoB COG0085
DNA-directed RNA polymerase, beta subunit/140 kD subunit [Transcription]; DNA-directed RNA ...
 8-608 1.34e-114

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: 365.20  E-value: 1.34e-114
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    8 SSLSHLRRTNT----PIGRDgkiaKP----RQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITvgtpaepivdfmiqr 79
Cdd:COG0085    382 SELTHKRRLSAlgpgGLSRE----RAgfevRDVHPSHYGRMCPIETPEGPNIGLIGSLALYARVN--------------- 442

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   80 nmevleefepqvtpnatkvfvngvwvgihrdpshlvttmqnlrrrnmishevslirdirerEFkiftdtGRVCRPLFVID 159
Cdd:COG0085    443 -------------------------------------------------------------EY------GFIETPYRKVE 455

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  160 NdpksensgGLVLNKehirkleadkdlppdlgpeerreqyfgwdglvrsgaVEYVDAEEEETIMIVmtpedleisrqlQA 239
Cdd:COG0085    456 N--------GKVTDE------------------------------------IEYLTADEEENYYIA------------QA 479

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  240 GYALPED----ETSDPNKRVRSILSQRAHTWTHCEIHPSMILGVCASIIPFPDHNQSPRNTYQSAMGKQAMGVFLTNfsq 315
Cdd:COG0085    480 NAPLDEDgnflEERVLVRYRGEEVLVPPEEVDYMDVSPKQIVSVATSLIPFLEHDDANRALMGANMQRQAVPLLRPE--- 556

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  316 rmetmANILYYP--------------QKPLAttRSMEFLR------------FRELPAGQNAIVAIATYSGYNQEDSVIM 369
Cdd:COG0085    557 -----APLLHYPlqkfqrsnqgtcinQRPIV--RVGDRVEkgdvladgpatdNGELALGQNLLVAFMPWEGYNYEDAIII 629

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  370 NQSSIDRGLFRSLFYRTYadtekmvglQVVERfekpmriDT-LGMRKGT----------YDKLDEDGIVAPGVRVSGEDI 438
Cdd:COG0085    630 SERLVKDDVLTSIHIEEY---------EIEAR-------DTkLGPEEITrdipnvseeaLRNLDEDGIIRIGAEVKGGDI 693

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  439 IIGKTAP---LAADAEELGQR----TKAHTKIDVSTPLRSTENGIVDQVLVST--GNDDL-----KFVKVRMRTTKIPQI 504
Cdd:COG0085    694 LVGKVTPkgeTELTPEERLLRaifgEKAREVRDTSLRVPHGEKGKVIDVKVFSreEGDELppgvnKLVRVYVAQKRKIEV 773

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  505 GDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGDATPFTDVTVDSVS 584
Cdd:COG0085    774 GDKLAGRHGNKGVISRILPQEDMPFLEDGTPVDIVLNPLGVPSRMNVGQVLETHLGWAAALLGRRVATPVFDGAPEEEIR 853

                          650       660
                   ....*....|....*....|....
gi 1352809652  585 RLLREHGYQSRGFEVMFNGHTGRK 608
Cdd:COG0085    854 ELLEKAGLPPDGKEVLYDGRTGEP 877
rpoB TIGR02013
DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit ...
 206-609 3.10e-33

DNA-directed RNA polymerase, beta subunit; This model describes orthologs of the beta subunit of Bacterial RNA polymerase. The core enzyme consists of two alpha chains, one beta chain, and one beta' subunit. [Transcription, DNA-dependent RNA polymerase]


Pssm-ID: 273928 [Multi-domain]  Cd Length: 1065  Bit Score: 136.33  E-value: 3.10e-33
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  206 VRSGAVEYVDAEEEETIMIVmtpedleisrqlQAGYALPEDetsdpNKRVRSILSQR---------AHTWTHCEIHPSMI 276
Cdd:TIGR02013  476 VVTDEIDYLTADEEDNYVIA------------QANAPLDEN-----GRFVEDLVVARyrgeitlvsPDQVDYMDVSPKQV 538

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  277 LGVCASIIPFPDHNQSPRNTYQSAMGKQAM-------------------------------GV---------FLTNFSQR 316
Cdd:TIGR02013  539 VSVAASLIPFLEHDDANRALMGSNMQRQAVpllrseaplvgtgmeakvardsgavivakrgGVveyvdakriVIRYDEDE 618

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  317 METMANILYYP--------------QKP-------------LATTRSMEFlrfRELPAGQNAIVAIATYSGYNQEDSVIM 369
Cdd:TIGR02013  619 EEPDGGIDIYRllkyqrsnqdtcinQRPivsvgdrveagdvLADGPSTDL---GELALGRNVLVAFMPWNGYNYEDAILI 695

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  370 NQSSIDRGLFRSLFyrtyadtekmvglqvVERFEKPMRIDTLGMRKGTYD----------KLDEDGIVAPGVRVSGEDII 439
Cdd:TIGR02013  696 SERLVKDDVFTSIH---------------IEEYEVEARDTKLGPEEITRDipnvseealrNLDENGIVRIGAEVKAGDIL 760

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  440 IGKTAPLAAD---AEELGQRT----KAHTKIDVSTPLRSTENGIVDQVLVST--GNDDL-----KFVKVRMRTTKIPQIG 505
Cdd:TIGR02013  761 VGKVTPKGETeltPEEKLLRAifgeKARDVRDTSLRVPPGVEGTVIDVKVFSreQGDELppgvnKLVKVYIAQKRKIQVG 840

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  506 DKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKVSALRGFEGD--ATP-FTDVTVDS 582
Cdd:TIGR02013  841 DKMAGRHGNKGVVSKILPIEDMPFLEDGTPVDIVLNPLGVPSRMNIGQILETHLGWAGKRLGRKGVpiATPvFDGASEEE 920

                          490       500
                   ....*....|....*....|....*..
gi 1352809652  583 VSRLLREHGYQSRGFEVMFNGHTGRKM 609
Cdd:TIGR02013  921 IKEYLEKAGLPRDGKVRLYDGRTGEQF 947
RNA_pol_Rpb2_4 pfam04566
RNA polymerase Rpb2, domain 4; RNA polymerases catalyze the DNA dependent polymerization of ...
 98-159 6.18e-30

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: 112.07  E-value: 6.18e-30
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1352809652  98 VFVNGVWVGIHRDPSHLVTTMQNLRRRNMISHEVSLIRDIREREFKIFTDTGRVCRPLFVID 159
Cdd:pfam04566   1 VFLNGNLIGVHRDPEELVETLRKLRRSGKISEEVSIVRDIREKEVRINTDGGRVCRPLIIVE 62
RNA_pol_Rpb2_3 pfam04565
RNA polymerase Rpb2, domain 3; RNA polymerases catalyze the DNA dependent polymerization of ...
 1-62 3.84e-28

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: 107.23  E-value: 3.84e-28
                          10        20        30        40        50        60
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1352809652   1 LSRYTFSSSLSHLRRTNTPIG---RDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCY 62
Cdd:pfam04565   3 LDRTNYLSTLSHLRRVNSPRGglfREMKTTEVRDLHPSHWGRICPVETPEGPNCGLVKHLALYAR 67
rpoB PRK00405
DNA-directed RNA polymerase subunit beta; Reviewed
 344-609 3.63e-27

DNA-directed RNA polymerase subunit beta; Reviewed


Pssm-ID: 234749 [Multi-domain]  Cd Length: 1112  Bit Score: 117.51  E-value: 3.63e-27
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  344 ELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFyrtyadtekmvglqvVERFEKPMRiDT-LGMRKGTYD--- 419
Cdd:PRK00405   712 ELALGQNVLVAFMPWNGYNFEDAILISERLVKEDVFTSIH---------------IEEYEIEAR-DTkLGPEEITRDipn 775

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  420 -------KLDEDGIVAPGVRVSGEDIIIGKTAP-----LAAdaEE------LGQrtKAHTKIDVStpLR--STENGIVDQ 479
Cdd:PRK00405   776 vseealrNLDESGIVRIGAEVKPGDILVGKVTPkgeteLTP--EEkllraiFGE--KARDVKDTS--LRvpHGEEGTVID 849

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  480 VLVST---GNDDL-----KFVKV-----RmrttKIpQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIP 546
Cdd:PRK00405   850 VKVFTrieQGDELppgvnKLVKVyiaqkR----KI-QVGDKMAGRHGNKGVVSRILPVEDMPYLEDGTPVDIVLNPLGVP 924

                          250       260       270       280       290       300
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1352809652  547 SRMTIAHLIECQLSKVSALRG--FegdATP-FTDVTVDSVSRLLREHGYQSRGFEVMFNGHTGRKM 609
Cdd:PRK00405   925 SRMNIGQILETHLGWAAKGLGikF---ATPvFDGAKEEEIKELLEEAGLPEDGKTTLYDGRTGEPF 987
rpoB CHL00207
RNA polymerase beta subunit; Provisional
 344-559 6.08e-23

RNA polymerase beta subunit; Provisional


Pssm-ID: 214397 [Multi-domain]  Cd Length: 1077  Bit Score: 104.02  E-value: 6.08e-23
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  344 ELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSL---FYRTYADTEKMVGLQVVERFEKpmridtlgmrKGTYD- 419
Cdd:CHL00207   643 ELALGQNVLVAYMPWEGYNFEDAILINKRLVYEDLFTSIhieKYEIELRQTKLGSEEITRNIPN----------VSEYSl 712

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  420 -KLDEDGIVAPGVRVSGEDIIIGKTAPLA-ADAEELGQRTKA---HTKIDV-STPLRSTENGIVDQVLVSTGN----DDL 489
Cdd:CHL00207   713 kNLDENGIISIGSKVLAGDILVGKITPKGeSDQLPEGKLLRAifgEKAKDVkDTSLRMPNGGYGRVIKVEIFSrskgDEL 792

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1352809652  490 KF---VKVRMRTTKIP--QIGDKFASRHGQKGTIG-ITYRQeDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQL 559
Cdd:CHL00207   793 KFgyyLKIRVFIAQIRkiQVGDKLAGRHGNKGIISrILPRQ-DMPYLPDGTPPDIILNPLGVPSRMNVGQLFECLL 867
RNA_pol_Rpb2_5 pfam04567
RNA polymerase Rpb2, domain 5; RNA polymerases catalyze the DNA dependent polymerization of ...
 202-273 8.23e-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: 91.45  E-value: 8.23e-23
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|..
gi 1352809652 202 WDGLVRSGAVEYVDAEEEETIMIVMTPEDLEISRQLQAGYAlpedetsdpnkrvrsilsqRAHTWTHCEIHP 273
Cdd:pfam04567   1 WSDLLREGVIEYLDAEEEETSMIAMTPEDLEESSREEREGP-------------------YAHTYTHCEIHP 53
PRK09606 PRK09606
DNA-directed RNA polymerase subunit B''; Validated
 1-76 2.99e-20

DNA-directed RNA polymerase subunit B''; Validated


Pssm-ID: 236587 [Multi-domain]  Cd Length: 494  Bit Score: 94.25  E-value: 2.99e-20
                          10        20        30        40        50        60        70
                  ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*.
gi 1352809652   1 LSRYTFSSSLSHLRRTNTPIGRDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYITVGTPAEPIVDFM 76
Cdd:PRK09606  409 LDRTDYMATLSHLRRVVSPLSRSQPHFEARDLHPTQWGRICPSETPEGPNCGLVKNFAQMVEISTGEDEEEVKEIL 484
rpoB CHL00001
RNA polymerase beta subunit
 344-559 2.01e-19

RNA polymerase beta subunit


Pssm-ID: 214330 [Multi-domain]  Cd Length: 1070  Bit Score: 93.04  E-value: 2.01e-19
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  344 ELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFYRTYaDTEKMVGLQVVERFEKPM-RIDTLGMRKgtydkLD 422
Cdd:CHL00001   648 ELALGKNVLVAYMPWEGYNFEDAVLISERLVYEDIYTSFHIRKY-EIQTHVTSQGPERITKEIpHLEAHLLRN-----LD 721

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  423 EDGIVAPGVRVSGEDIIIGKTAPLaaDAEEL-----GQRTKAHTKIDVS----TPLRSTENG---IVDQVLVS---TGND 487
Cdd:CHL00001   722 KNGIVMLGSWVETGDILVGKLTPQ--EAEESsyapeGRLLRAIFGIQVStskeTCLKLPIGGrgrVIDVRWIQkkgGSSY 799

                          170       180       190       200       210       220       230
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*...
gi 1352809652  488 DLKFVKV-----RmrttKIpQIGDKFASRHGQKGTIG-ITYRQeDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQL 559
Cdd:CHL00001   800 NPETIHVyilqkR----EI-QVGDKVAGRHGNKGIISkILPRQ-DMPYLQDGTPVDMVLNPLGVPSRMNVGQIFECLL 871
PRK09603 PRK09603
DNA-directed RNA polymerase subunit beta/beta';
203-562 4.13e-13

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 181983 [Multi-domain]  Cd Length: 2890  Bit Score: 73.03  E-value: 4.13e-13
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  203 DGLVrSGAVEYVDAEEEETIMIVmtpedlEISRQLQAGYALPEDeTSDPNKRVRSILSQRAHTwTHCEIHPSMILGVCAS 282
Cdd:PRK09603   610 DGKV-VGETIYLTAIQEDSHIIA------PASTPIDEEGNILGD-LIETRVEGEIVLNEKSKV-TLMDLSSSMLVGVAAS 680

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  283 IIPFPDHNQSPRNTYQSAMGKQAMGVFL-------TNFSQRM------------------------------ETMANILY 325
Cdd:PRK09603   681 LIPFLEHDDANRALMGTNMQRQAVPLLRsdapivgTGIEKIIardswgaikanragvvekidskniyilgegKEEAYIDA 760

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  326 YP-QKPLATTRSMEF-----------------------LRFRELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRS 381
Cdd:PRK09603   761 YSlQKNLRTNQNTSFnqvpivkvgdkveagqiiadgpsMDRGELALGKNVRVAFMPWNGYNFEDAIVVSERITKDDIFTS 840

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  382 L-FYRTYADTEKMV-GLQVVERfekpmriDTLGMRKGTYDKLDEDGIVAPGVRVSGEDIIIGKTAP-------------- 445
Cdd:PRK09603   841 ThIYEKEVDARELKhGVEEFTA-------DIPDVKEEALAHLDESGIVKVGTYVSAGMILVGKTSPkgeikstpeerllr 913

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  446 ------------------------------------------LAADAEE------------------------------- 452
Cdd:PRK09603   914 aifgdkaghvvnkslycppslegtvidvkvftkkgyekdarvLSAYEEEkakldmehfdrltmlnreellrvssllsqai 993

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  453 LGQRTKAHTKI-----------------------------DVSTPLRSTENGIVDQV----------LVSTGNDDL---- 489
Cdd:PRK09603   994 LEEPFSHNGKDykegdqipkeeiasinrftlaslvkkyskEVQNHYEITKNNFLEQKkvlgeeheekLSILEKDDIlpng 1073

                          490       500       510       520       530       540       550
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*
gi 1352809652  490 --KFVKVRMRTTKIPQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQLSKV 562
Cdd:PRK09603  1074 viKKVKLYIATKRKLKVGDKMAGRHGNKGIVSNIVPVADMPYTADGEPVDIVLNPLGVPSRMNIGQILEMHLGLV 1148
PRK14844 PRK14844
DNA-directed RNA polymerase subunit beta/beta';
8-559 1.12e-10

DNA-directed RNA polymerase subunit beta/beta';


Pssm-ID: 173305 [Multi-domain]  Cd Length: 2836  Bit Score: 65.03  E-value: 1.12e-10
                           10        20        30        40        50        60        70        80
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652    8 SSLSHLRRTNT--PIG--RDGKIAKPRQLHNTHWGLVCPAETPEGQACGLVKNLALMCYIT----VGTPAEPIVDFMIQR 79
Cdd:PRK14844   543 SEITHKRRLSAlgPGGltRERAGFEVRDVHPTHYGRICPIETPEGQNIGLINSLAIYARINkygfIESPYRKVVNRVVTD 622

                           90       100       110       120       130       140       150       160
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652   80 NMEVLEEFE--------PQVTPNATKVFVNGVWVGIHRDPSHLVTTMQ----NLRRRNMISHEVSLIrdirerefkiftd 147
Cdd:PRK14844   623 QIEYLSAIDeglyyiadTSAKLDENNCFVDDMLYCRYAGSFVMVSSDQvsyiDVSPKQVISVAASLI------------- 689

                          170       180       190       200       210       220       230       240
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  148 tgrvcrPLfvIDNDPKSENSGGLVLNKEHIRKLeadKDLPPDLGPeerreqyfGWDGLVRSGAVEYVDAEEEETImivmt 227
Cdd:PRK14844   690 ------PF--LENDDANRALMGSNMQRQAVPLL---KPTAPLVAT--------GMESFVASGSGAVVLAKRDGIV----- 745

                          250       260       270       280       290       300       310       320
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  228 pedleisrqlqagyalpedETSDPNKRVRSILSQRAHTWTHCEIHpsmilgvcasiipfpdH-NQSPRNTYQSAMGKQAM 306
Cdd:PRK14844   746 -------------------DSSDSNSIVIRAFDKERVNYLDVDIY----------------HlRKFQRSNHNTCINQKPL 790

                          330       340       350       360       370       380       390       400
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  307 gVFLTNFSQRMETMANilyypqKPLATTRsmeflrfrELPAGQNAIVAIATYSGYNQEDSVIMNQSSIDRGLFRSLFyrt 386
Cdd:PRK14844   791 -VCVGDYVKEGDVIAD------GPAINSG--------ELALGQNLLVAFMSWQGYNFEDSIIISSEVVKKDLFTSIH--- 852

                          410       420       430       440       450       460       470       480
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  387 yadtekmvglqvVERFEKPMRIDTLGMRKGTYD----------KLDEDGIVAPGVRVSGEDIIIGKTAPL---------- 446
Cdd:PRK14844   853 ------------IEEFECVVHDTPLGSEKITRAipgvneenlyHLDDSGIVKIGTRVGPGYILVGKVTPKpslslppetk 920

                          490       500       510       520       530       540       550       560
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  447 ------------AADAEELGQRTKAHTKIDVSTPLRSTE---------------------NGIVD-----------QVLV 482
Cdd:PRK14844   921 llmtifgeksfdCADSSLYTSPDVEGTVIDVQVFTRRGVeenerallikqkeindfekerDYIINvtseyfydelkKLLI 1000

                          570       580       590       600       610       620       630       640
                   ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 1352809652  483 STGNDD-------------------------------------------------------------LKFVKVRMRTTKI 501
Cdd:PRK14844  1001 NSGSQDrekfdsiereqwwgiglknqsiseqvkslkkdfdekvshaiaqfkrkveklhegydlpqgvSMSVKVFIAVKHS 1080

                          650       660       670       680       690
                   ....*....|....*....|....*....|....*....|....*....|....*...
gi 1352809652  502 PQIGDKFASRHGQKGTIGITYRQEDMPFTREGVVPDLIINPHAIPSRMTIAHLIECQL 559
Cdd:PRK14844  1081 LQPGDKMAGRHGNKGVISRVVPVEDMPYLEDGTPVDIILNPLGVPSRMNVGQILETHV 1138
 
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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