4KN7,1I6H,3H0G,6CNB,6RWE,4XLR


Conserved Protein Domain Family
RNA_pol_Rpb2_1
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pfam04563: RNA_pol_Rpb2_1 
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RNA polymerase beta subunit
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 forms one of the two distinctive lobes of the Rpb2 structure. This domain is also known as the protrusion domain. The other lobe (pfam04561) is nested within this domain.
Links
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Statistics
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PSSM-Id: 367994
Aligned: 13 rows
Threshold Bit Score: 344.363
Created: 22-Mar-2022
Updated: 17-Oct-2022
Structure
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Program:
Drawing:
Aligned Rows:
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PubMed ReferencesClick to see Conserved Features Help
Sequence Alignment
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Format: Row Display: Color Bits: Type Selection: 
4KN7_C   26 YLLSIQLDSFQKF------------IEQDPEGQYGLEAAFRSVFPIQS-YSGN-------SELQYVSYRLGEPVFDV--- 82   Escherichia coli
1I6H_B   42 GLVSQQLDSFNQF------------VDYTLQDIICEDSTLILEQLAQH-TTESdni-srkYEISFGKIYVTKPMVNEsdg 107  baker's yeast
3H0G_N   29 SLARQQLFSFDEF------------VQNTMQEIVDDDSTLTLDQYAQH-TGAQgdv-trrYEINFGQIYLSRPTMTEadg 94   Schizosaccharomyces...
P38420   38 GLVRQQLDSFDEF------------IQNTMQEIVDESADIEIRPESQHnPGHQsdfaetiYKISFGQIYLSKPMMTEsdg 105  thale cress
Q10578   45 GLVRQQLDSFDEF------------VQMNVQRIVEDSPPVELQSENQH-LGTDmen-pakFSLKFNQIYLSKPTHWEkdg 110  Caenorhabditis elegans
O96236   48 GLVNQQIESYNDF------------IEYRMQEIIDEHPKIEIRPQPQY-RTDRdendniiYSLKFGQLSLDRPFYDEknl 114  Plasmodium falcipar...
P11513   19 GLVRQHLDSFNDF------------LRNKLQQVIYEQGEIVTEVPG--------------LKIKLGKIRYEKPSIREtdk 72   Sulfolobus acidocal...
6CNB_B   56 GLVKQHLDSFNYF------------VDTDLKKIIKANQLILSDVDPE-------------FYLKYVDIRVGKKSSSStkd 110  Saccharomyces cerev...
Q10233   62 GLVKQHLDSYNYF------------VDVDLKKIVQANEKVTSDVEPW-------------FYLKYLDIRVGAPVRTDada 116  Schizosaccharomyces...
P20028   34 NLGGPHVDSFDEMlt--------vgLDNSAKHMIPNHWLSPAGEK---------------ISMKVESIWIAKPKVPQdvi 90   fruit fly
6RWE_B   40 EAVQPHIGSFNALtegpdggllnlgVKDIGEKVIFDGKPLNSEDEISN-SGYLgn----kLSVSVEQVSIAKPMSNDgvs 114  baker's yeast
4XLR_I   17 PLTEIQVESYKKA------------LQADVPPEKRENVGIQAAFKETF-PIEEgdkgkggLVLDFLEYRIGDPPFSQ--- 80   Thermus aquaticus
Q9KV30   26 YLLSIQLDSFEKF------------IEQDPEGQYGLEAAFRSVFPIQS-YNGN-------SELQYVSYRLGEPVFDV--- 82   Vibrio cholerae O1 ...

4KN7_C   83 ---------QECQIRGVTYSAPLRVKLRLVIYerea-----------pegTVKDIKEQEVYMGEIPLMTDN--------- 133  Escherichia coli
1I6H_B  108 vt--halypQEARLRNLTYSSGLFVDVKKRTYeaidvpgrelkyeliaeeSEDDSESGKVFIGRLPIMLRSkncylseat 185  baker's yeast
3H0G_N   95 st--ttmfpQEARLRNLTYSSPLYVDMRKKVMvaadsnvp--igeeewlvEEEDEEPSKVFIGKIPIMLRStfcilngvs 170  Schizosaccharomyces...
P38420  106 et--atlfpKAARLRNLTYSAPLYVDVTKRVIkkgh----------dgeeVTETQDFTKVFIGKVPIMLRSsyctlfqns 173  thale cress
Q10578  111 ap--mpmmpNEARLRNLTYASPLYVDITKVVTrd---------------dSATEKVYDKVFVGKVPVMLRSsycmlsnmt 173  Caenorhabditis elegans
O96236  115 sn--knlwpQEARLRNLTYSSAIYIDIEQSTYiidev--------tkkpvLKEKFIYERINLGRIPLMLKSmfcwtkglp 184  Plasmodium falcipar...
P11513   73 gpm-reitpMEARLRNLTYSSPIFLSMIPVE-------------------NNIEGEPIEIYIGDLPIMLKSvadptsnlp 132  Sulfolobus acidocal...
6CNB_B  111 y----ltppHECRLRDMTYSAPIYVDIEYTR-------------------GRNIIMHKDVEIGRMPIMLRSnkcilydad 167  Saccharomyces cerev...
Q10233  117 iq--asispHECRLRDLTYGANIYVDIEYTR-------------------GKQVVRRRNVPIGRMPVMLRSnkcvlsgkn 175  Schizosaccharomyces...
P20028   91 dvrtreiypTDSRQLHVSYSGMCSVRLGWSV-------------------NGVQKTPINMDLGEVPIMLRSkacnlgqat 151  fruit fly
6RWE_B  115 saverkvypSESRQRLTSYRGKLLLKLKWSVN------------------NGEENLFEVRDCGGLPVMLQSnrchlnkms 176  baker's yeast
4XLR_I   81 ---------DECREKDLTYQAPLYARLQLIHK------------------DTGLIKEDEVFLGHLPLMTED--------- 124  Thermus aquaticus
Q9KV30   83 ---------KECQIRGVTYSKPLRVKLRLVIFdkda-----------pagTVKDIKEQEVYMGEIPLMTEN--------- 133  Vibrio cholerae O1 ...

4KN7_C  134 ---------------GTFVINGTERVIVSQLHRS---PGVFFDSDKGKTHSSGKVLYNARI--IPYRGSWLDF------- 186  Escherichia coli
1I6H_B  186 esdlyklkecpfdmgGYFIINGSEKVLIAQERSAgniVQVFKKAAPSPISHVAEIRSALEKgsRFISTLQVKLyg----- 260  baker's yeast
3H0G_N  171 dselydlnecpydqgGYFIINGSEKVIIAQERSAaniVQVFKKAAPSPIAYVAEIRSALERgsRLISSMQIKLma----- 245  Schizosaccharomyces...
P38420  174 ekdltelgecpydqgGYFIINGSEKVLIAQEKMStnhVYVFKKRQPNKYAYVGEVRSMAENqnRPPSTMFVRMlara--- 250  thale cress
Q10578  174 drdltelnecpldpgGYFVINGSEKVLIAQEKMAtntVYVFSMKD-GKYAFKTECRSCLENssRPTSTMWVNMlargg-g 251  Caenorhabditis elegans
O96236  185 eneiadmgecsydqgGYFIVNGGEKVLVAQERMAnnfIYVFKKKQPSKFGWVAEIRSQMERs-QATSGFSVKMktrsggs 263  Plasmodium falcipar...
P11513  133 idklieigedpkdpgGYFIVNGSEKVIIAQEDLAtnrVLVDYGKSGSNITHVAKVTSSA-------AGYRVQVm------ 199  Sulfolobus acidocal...
6CNB_B  168 eskmaklnecpldpgGYFIVNGTEKVILVQEQLSknrIIV--EADEKKGIVQASVTSSTHE--RKSKTYVI--------- 234  Saccharomyces cerev...
Q10233  176 ememaalnecpldpgGYFIVKGTEKVILVQEQLSknrIIV--EAEPKKGLWQASVTSSTHE--RKSKTYVI--------- 242  Schizosaccharomyces...
P20028  152 peemvkhgehdsewgGIFVIRGNEKIVRMLIMTRrnhPICVKRSSWKDRGQNFSDLGMLVQtvREDESSLSNVv------ 225  fruit fly
6RWE_B  177 pyelvqhkeesdeigGYFIVNGIEKLIRMLIVQRrnhPMAIIRPSFANRGASYSHYGIQIRsvRPDQTSQTNVl------ 250  baker's yeast
4XLR_I  125 ---------------GSFIINGADRVIVSQIHRS---PGVYFTPDPARPG-----RYIASIipLPKRGPWIDL------- 174  Thermus aquaticus
Q9KV30  134 ---------------GTFVINGTERVIVSQLHRS---PGVFFDSDKGKTHSSGKVLYNARI--IPYRGSWLDF------- 186  Vibrio cholerae O1 ...

4KN7_C  187 ---EFDPKDNLFVRIDRRRK---LPATIILRALNYTTEQILdlfFEKVIF-EIRDNKLQMELVPErlrgetasfdieang 259  Escherichia coli
1I6H_B  261 --rEGSSARTIKATLPYIKQd--IPIVIIFRALGIIPDGEI---LEHICY-DVNDWQMLEMLKPC--------------- 317  baker's yeast
3H0G_N  246 -rnTENSGQTIRATLPYIRSd--IPIVIVFRALGVVPDRDI---LEHICY-DPNDFQMLEMMKPC--------------- 303  Schizosaccharomyces...
P38420  251 sakGGSSGQYIRCTLPYIRTe--IPIIIVFRALGFVADKDI---LEHICY-DFADTQMMELLRPS--------------- 309  thale cress
Q10578  252 ggkKTAMGQRIIGILPYIKQe--IPIMIVFRALGFVSDRDI---LGHIIY-DFNDPEMMEMVKPS--------------- 310  Caenorhabditis elegans
O96236  264 qygSNKSGGQLVATLPYIRTe--ISVGILFRALGCTSDRDI---LQRIVY-DFNDKLMINALRET--------------- 322  Plasmodium falcipar...
P11513  200 --iERLKDSTIQISFATVPGr--IPFAIIMRALGFVTDRDI---VYAVSL----DPQIQNELLPS--------------- 253  Sulfolobus acidocal...
6CNB_B  235 -----TKNGKIYLKHNSIAEe--IPIAIVLKACGILSDLEI---MQLVCG---NDSSYQDIFAVN--------------- 286  Saccharomyces cerev...
Q10233  243 -----TKNGKLYLKHNSVADd--IPIVVVLKAMGLQSDQEI---FELVAG---AEASYQDLFAPS--------------- 294  Schizosaccharomyces...
P20028  226 ---HYLNNGTAKFMFSHVKRlsyVPVCLILKCLMDYTDEEI---YNRLVQgYESDQYYVSCVQAM--------------- 284  fruit fly
6RWE_B  251 ---HYLNDGQVTFRFSWRKNeylVPVVMILKALCHTSDREI---FDGIIGnDVKDSFLTDRLEL---------------- 308  baker's yeast
4XLR_I  175 ---EVEASGVVTMKVNKRK----FPLVLLLRVLGYDQETLV---RELSAYgDLVQGLLDEAVLAM--------------- 229  Thermus aquaticus
Q9KV30  187 ---EFDPKDNLYVRIDRRRK---LPASIILRALGKTSAEILdifFEKVNF-EVKDQTLMMELVPErlrgetatfdieadg 259  Vibrio cholerae O1 ...

4KN7_C  260 kvyVEKGRRItarhirqlekddvKLIEVPVEYIAGKVVAkdyidestgelicaanmelsldllaklsqsghkrietlftn 339  Escherichia coli
1I6H_B  318 ---VEDGFVI-------------QDRETALDFIGRRGTA----------------------------------------- 340  baker's yeast
3H0G_N  304 ---IEEAFVI-------------QDKDIALDYIGKRGST----------------------------------------- 326  Schizosaccharomyces...
P38420  310 ---LEEAFVI-------------QNQLVALDYIGKRGAT----------------------------------------- 332  thale cress
Q10578  311 ---LDEAFVI-------------QEQNVALNFIGARGAK----------------------------------------- 333  Caenorhabditis elegans
O96236  323 ---LEECIEY-------------PTQDVCLDFIGKRGPT----------------------------------------- 345  Plasmodium falcipar...
P11513  254 ---LEQASSI-------------TSAEEALDFIGNR-VA----------------------------------------- 275  Sulfolobus acidocal...
6CNB_B  287 ---LEESSKLd-----------iYTQQQALEYIGAKVKT----------------------------------------- 311  Saccharomyces cerev...
Q10233  295 ---IEECAKLn-----------iYTAQQALEYIGARVKVnr--------------------------------------- 321  Schizosaccharomyces...
P20028  285 ---LREVQNEn-----------vYTHAQCKSFIGNLFRArf--------------------------------------- 311  fruit fly
6RWE_B  309 ---LLRGFKKryp--------hlQNRTQVLQYLGDKFRVvf--------------------------------------- 338  baker's yeast
4XLR_I  230 ---RPEEAMVrlftll--rpgdpPKKDKALAYLFGLLADpk--------------------------------------- 265  Thermus aquaticus
Q9KV30  260 kvyVEKGRRVtarhirqlekdgvNFIEVPVEYIVGKVSAkdyvneatgeliitanqeislealanlsqagykklevlftn 339  Vibrio cholerae O1 ...

4KN7_C  340 dldhgpyisetlrvdptndrlsalveiyrMMRPGEPPTREAAES---LFENLFFSEDRYDLSAVGRMKFnrsllreeieg 416  Escherichia coli
1I6H_B  341 -----------------------------LGIKKEKRIQYAKDI---LQKEFLPHITQLEGFESRKAFF----------- 377  baker's yeast
3H0G_N  327 -----------------------------TGVTREKRLRYAHDI---LQKELLPHITTMEGFETRKAFF----------- 363  Schizosaccharomyces...
P38420  333 -----------------------------VGVTKEKRIKYARDI---LQKEMLPHVGIGEHCETKKAYY----------- 369  thale cress
Q10578  334 -----------------------------PGVTREQRIKYAREI---LQKELLPHVGVSEHCETKKAFF----------- 370  Caenorhabditis elegans
O96236  346 -----------------------------VGASREKRILYAKEL---LRKEVLPHMGTHPGVESKKSYF----------- 382  Plasmodium falcipar...
P11513  276 -----------------------------IGQKRENRIQKAEQV---IDKYFLPHLGTSPEDRKKKGYY----------- 312  Sulfolobus acidocal...
6CNB_B  312 -----------------------------MRRQKLTILQEGIEA---IATTVIAHLTVEALDFREKALY----------- 348  Saccharomyces cerev...
Q10233  322 ----------------------------rAGANRLPPHEEALEV---LAAVVLAHINVFNLEFRPKAVY----------- 359  Schizosaccharomyces...
P20028  312 ----------------------------pEVPEWQPDDDVTDFI---LRERVMIHLDTYE----DKFQL----------- 345  fruit fly
6RWE_B  339 ----------------------------qAS-PDQSDLEVGQEV---LDRIVLVHLGKDGS--QDKFRM----------- 373  baker's yeast
4XLR_I  266 ----------------------------rYDLGEAGRYKAEEKLgvgLSGRTLVRFEDGEF---KDEVF----------- 303  Thermus aquaticus
Q9KV30  340 dldhgpfmsetlrvdsttdrisalveiyrMMRPGEPPTKEAAES---LFESLFFSAERYDLSTVGRMKFnssigredaee 416  Vibrio cholerae O1 ...

4KN7_C  417 sgilskddIIDVMKKLIDIRNG--KGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERL--SLGDLD-----T- 486  Escherichia coli
1I6H_B  378 --------LGYMINRLLLCALD--RKDQDDRDHFGKKRLDLAGPLLAQLFKTLFKKLTKDIFRYMqrTVEEAH-----D- 441  baker's yeast
3H0G_N  364 --------LGYMIHRMLLCALE--RREPDDRDHFGKKRLDLAGPLLASLFRMLFRKMTRDVYKYMqkCVETNR-----E- 427  Schizosaccharomyces...
P38420  370 --------FGYIIHRLLLCALG--RRPEDDRDHYGNKRLDLAGPLLGGLFRMLFRKLTRDVRSYVqkCVDNGK-----E- 433  thale cress
Q10578  371 --------IGYMVHRLLLAALG--RRELDDRDHIGNKRLDLAGPLLAFLFRSLFRNLLKEMRMTAqkYINKND-----D- 434  Caenorhabditis elegans
O96236  383 --------IGYMINRLLLAELG--RIKEDDRDHFGKKRLDIAGPLMASSFSTYFRKMAKDVRRVLqrQIDNNK-----P- 446  Plasmodium falcipar...
P11513  313 --------LASAVNKILELYLG--RREPDDKDHYANKRVRLAGDLFTSLFRVAFKAFVKDLVYQLekSKVRGR-----R- 376  Sulfolobus acidocal...
6CNB_B  349 --------IAMMTRRVVMAMYN--PKMIDDRDYVGNKRLELAGQLISLLFEDLFKKFNNDFKLSIdkVLKKPNrameyD- 417  Saccharomyces cerev...
Q10233  360 --------IGIMARRVLMAMVD--PLQVDDRDYVGNKRLELAGQLLALLFEDLFKKFNSDLKLNIdkVLKKPHrtqefD- 428  Schizosaccharomyces...
P20028  346 --------IVFMIQKLFQCAQG--KYKVENVDSAMMQEVLLPGHLYQKYLSERVESWVSQVRRCLqkKLTSPDalvtsA- 414  fruit fly
6RWE_B  374 --------LLFMIRKLYSLVAG--ECSPDNPDATQHQEVLLGGFLYGMILKEKIDEYLQNIIAQVrmDINRGMainfkDk 443  baker's yeast
4XLR_I  304 --------LPTL-RYLFALTAGvpGHEVDDIDHLGNRRIRTVGELMADQFRVGLARLARGVRERM--VMGSPD-----T- 366  Thermus aquaticus
Q9KV30  417 qgtldevdIIEVMKKLISIRNG--KGEVDDIDHLGNRRIRSVGEMAENQFRVGLVRVERAVKERL--SLGDLD-----N- 486  Vibrio cholerae O1 ...

4KN7_C  487 -LMPQDMINA-KPISA 500  Escherichia coli
1I6H_B  442 -FNMKLAINA-KTITS 455  baker's yeast
3H0G_N  428 -FNLTLAVKS-NIITN 441  Schizosaccharomyces pombe 972h-
P38420  434 -VNLQFAIKA-KTITS 447  thale cress
Q10578  435 -FALDVCVKT-STITR 448  Caenorhabditis elegans
O96236  447 -FDVAGAIRScSQITQ 461  Plasmodium falciparum 3D7
P11513  377 -LSLTALVRA-DIITE 390  Sulfolobus acidocaldarius DSM 639
6CNB_B  418 -ALLSINVHS-NNITS 431  Saccharomyces cerevisiae S288C
Q10233  429 -AYNQLTVHS-DHITQ 442  Schizosaccharomyces pombe 972h-
P20028  415 -VMTQCMRQA-GGVGR 428  fruit fly
6RWE_B  444 rYMSRVLMRVnENIGS 459  baker's yeast
4XLR_I  367 -LTPAKLVNS-RPLEA 380  Thermus aquaticus
Q9KV30  487 -VMPQDLINA-KPISA 500  Vibrio cholerae O1 biovar El Tor str. N16961
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