8U9X,8YQT,7EU0


Conserved Protein Domain Family
RNA_pol_Rpb1_3

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pfam04983: RNA_pol_Rpb1_3 (This model is not part of the current CDD release)
RNA polymerase Rpb1, domain 3
RNA polymerases catalyze the DNA dependent polymerisation of RNA. Prokaryotes contain a single RNA polymerase compared to three in eukaryotes (not including mitochondrial. and chloroplast polymerases). This domain, domain 3, represents the pore domain. The 3' end of RNA is positioned close to this domain. The pore delimited by this domain is thought to act as a channel through which nucleotides enter the active site and/or where the 3' end of the RNA may be extruded during back-tracking.
Statistics
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PSSM-Id: 516549
Aligned: 115 rows
Threshold Bit Score: 59.5793
Created: 14-Feb-2025
Updated: 28-Apr-2025
Structure
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Program:
Drawing:
Aligned Rows:
PubMed ReferencesClick to see Conserved Features Help

Sequence Alignment
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Format: Row Display: Color Bits: Type Selection:
8U9X_A  510 QIVSPQSNKPCMGIVQDTLCGIRKLTLRD-------------------------TFIELDQVLNMLYWVPDwDgVIPTPA 564  brewer's yeast
P77917  478 HILAPKDGKPVVTPSQDMVIGNYWLTMERaesv-----------------gegmIFNDLDEVKLALQNG---Y-VSIHTR 536  Pediococcus acidila...
P96177  412 HILAPKDGKPIVAPSQDMVIGNYYLTTEEagre-----------------gegmIFKDVNEVRTAYQNK---Y-VHLHTR 470  Weissella hellenica
P95405  417 HILAPKDGKPIVAPSQDMTIGNYYLTTEEagik-----------------gegmIFSSADEVKMALQNH---E-VELHTR 475  Oenococcus oeni
Q9CEN7  479 HILNPKDGKPVVTPSQDMVLGNYYLTMEEkgre-----------------gegmIFATPEEVEIAMRNG---Y-VHLHTR 537  Lactococcus lactis ...
P0C0D9  412 HILNPKDGKPVVTPSQDMVLGNYYLTMEDagre-----------------gegmIFKDKDEAVMAYRNG---Y-AHLHSR 470  Streptococcus pyogenes
P47582  561 HILGLKDGRPIVTPTQDMVLGNYYLTTERkgql-----------------gegiIFSTVYEARAAYESQ---K-VHLHAI 619  Mycoplasmoides geni...
Q9PQV5  556 HILGPKDGKPIITPTQDMILGIYYLTKEKfpqvieemmakdptqarvefinnfhIFSTQDEAIRAYKLK---T-IRINDV 631  Ureaplasma parvum s...
Q9J593  442 LLKHDVHGMPVYGSIQDEILAAYNLFREY-------------------------DLTQDEVLNILGKYGLEfl------- 489  Fowlpox virus strai...
Q9Q8N2  442 LLKHDIHGAPVYGSIQDEIVAAYSLFRME-------------------------DLTLDEVMNLLGKYGIEfd------- 489  Myxoma virus
8U9X_A  565 IIKP-KP------------LWSGKQILSVAIPn-GIHLQRfdegtt-----llspkdNGMLIIDGQIIFGVVEKKTVG-- 623  brewer's yeast
P77917  537 IGVRaSSmpekpf-tdqqrQQILITTAGKMLFn-DILPKDfvylnaptneklvngtpDEYFLEAGED----IHEQLNQrp 610  Pediococcus acidila...
P96177  471 IGIQtASlsaekpftaeqrSRIMMTSVGKLFFn-DILPADfpylnept-eanlheidNRFFLEPGED----IKARYAEtp 544  Weissella hellenica
P95405  476 IGIAaSSfdkakpftdhqrARIMVTTVGKVIFn-EILPDDfpyinepk-senfngidGRFFLDPGTD----IVGWFKNes 549  Oenococcus oeni
Q9CEN7  538 IGIAtKSlnkpw--tenqkDKILVTTVGKVIFn-SIIPEGmpylneptdvnlttstdDRFFMDAGQD----IKEVLAGid 610  Lactococcus lactis ...
P0C0D9  471 VGIAvDSmpnkpw-kdsqrHKIMVTTVGKILFn-DIMPEDlpylqepnnanltegtpDKYFLEPGQDIQEVID----Gld 544  Streptococcus pyogenes
P47582  620 VGIStKAfpnk----kfacQGTLITTVGKIIFn-DVLGNNvpyindge--fdenacpEKFIVKQGEDVRQSILKHQIIpa 692  Mycoplasmoides geni...
Q9PQV5  632 IGITtKAfnnkt----fskegILVTTVGKIIFn-QAFPVNfpyindv---knlygenQFEIIGMHES----ILDYLKAyn 699  Ureaplasma parvum s...
Q9J593  490 tdYErKD------------KYTGKDIFKFLINepEINYPG--------------------IICNGEIIAENIDSNFIVs- 536  Fowlpox virus strai...
Q9Q8N2  490 --aRgKT------------KFSGKDIYTFLIGe-KVNYPG--------------------ILKDGTVIAPNVSSDFVVa- 533  Myxoma virus
8U9X_A  624 -------SSNGGLIHVVTREKgpQVCAKLFGNIQKVVNFWLLHNGFSTGIGDT 669  brewer's yeast
P77917  611 llspfksGFLSDVIAEVYKQYkvTETSLLLDRMKDLGFYRSTLSGLTVGIADI 663  Pediococcus acidilactici
P96177  545 ilppfkkGYLSDIIAEVYKIYkvTETSLLLDRMKDLGYDESTKSGLTVGVADV 597  Weissella hellenica
P95405  550 lngpfksGFLSDIIAQIYARYqvTRTSVLLDDMKDLGYNISTRSGLTVRMSDV 602  Oenococcus oeni
Q9CEN7  611 tvrpfkkGYLGNIIAEVFKRYrtTATSEYLDRLKNLGYHQSTLAGLTVGIADI 663  Lactococcus lactis subsp. lactis Il1403
P0C0D9  545 invpfkkKNLGNIIAETFKRFrtTETSAFLDRLKDLGYYHSTLAGLTVGIADI 597  Streptococcus pyogenes
P47582  693 f----skKVISKLIDLLYLLLefKDLPKTLDNIKALGFKYSTFSSTTVSVFDI 741  Mycoplasmoides genitalium G37
Q9PQV5  700 lkepltkKTLSTVIDYLYKVSeiEVVPQTMDKIKALGFKYSMISATSISAFDI 752  Ureaplasma parvum serovar 3 str. ATCC 700970
Q9J593  537 -------MKHMSISGLITDYKssVEGIKFINKASYVFKRYLKIYGFSITFRNL 582  Fowlpox virus strain NVSL
Q9Q8N2  534 -------MRHMSLAGLIADYTsnVEGVNFIIKSSYVFKRYLEIYGFGVTFKEL 579  Myxoma virus
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