#=GF ID RPOC_hybrid
#=GF AC PF21668.1
#=GF DE DNA-directed RNA polymerase subunit beta', hybrid domain
#=GF AU Bateman A;0000-0002-6982-4660
#=GF AU Chuguransky S;0000-0002-0520-0736
#=GF SE ECOD:EF16636
#=GF GA 27.00 27.00;
#=GF TC 27.00 30.00;
#=GF NC 26.90 26.90;
#=GF BM hmmbuild HMM.ann SEED.ann
#=GF SM hmmsearch -Z 75585367 --cpu 4 -E 1000 HMM pfamseq
#=GF TP Domain
#=GF CL CL0105
#=GF RC Paper describing PDB structure 1iw7
#=GF RN [1]
#=GF RM 12000971
#=GF RT Crystal structure of a bacterial RNA polymerase holoenzyme at
#=GF RT 2.6 A resolution.
#=GF RA Vassylyev DG, Sekine S, Laptenko O, Lee J, Vassylyeva MN,
#=GF RA Borukhov S, Yokoyama S;
#=GF RL Nature. 2002;417:712-719.
#=GF RC Paper describing PDB structure 1l9u
#=GF RN [2]
#=GF RM 12016306
#=GF RT Structural basis of transcription initiation: RNA polymerase
#=GF RT holoenzyme at 4 A resolution.
#=GF RA Murakami KS, Masuda S, Darst SA;
#=GF RL Science. 2002;296:1280-1284.
#=GF RC Paper describing PDB structure 2auj
#=GF RN [3]
#=GF RM 16154587
#=GF RT Structure and function of lineage-specific sequence insertions
#=GF RT in the bacterial RNA polymerase beta' subunit.
#=GF RA Chlenov M, Masuda S, Murakami KS, Nikiforov V, Darst SA, Mustaev
#=GF RA A;
#=GF RL J Mol Biol. 2005;353:138-154.
#=GF RC Paper describing PDB structure 2cw0
#=GF RN [4]
#=GF RM 16122422
#=GF RT Inhibition of bacterial RNA polymerase by streptolydigin:
#=GF RT stabilization of a straight-bridge-helix active-center
#=GF RT conformation.
#=GF RA Tuske S, Sarafianos SG, Wang X, Hudson B, Sineva E, Mukhopadhyay
#=GF RA J, Birktoft JJ, Leroy O, Ismail S, Clark AD Jr, Dharia C, Napoli
#=GF RA A, Laptenko O, Lee J, Borukhov S, Ebright RH, Arnold E;
#=GF RL Cell. 2005;122:541-552.
#=GF RC Paper describing PDB structure 4gzy
#=GF RN [5]
#=GF RM 23374340
#=GF RT Structural basis of transcriptional pausing in bacteria.
#=GF RA Weixlbaumer A, Leon K, Landick R, Darst SA;
#=GF RL Cell. 2013;152:431-441.
#=GF DR SO; 0000417; polypeptide_domain;
#=GF CC This is a hybrid domain found in DNA-directed RNA polymerase
#=GF CC subunit beta' (RPOC) found in Deinococcus [1-5].
#=GF SQ 31
#=GS A0A172T7S6_9DEIO/241-360 AC A0A172T7S6.1
#=GS A0A2K3UVB1_9DEIO/241-367 AC A0A2K3UVB1.1
#=GS E4U7Z4_OCEP5/242-341 AC E4U7Z4.1
#=GS A0A841I6W5_9DEIO/241-341 AC A0A841I6W5.1
#=GS RPOC_DEIGD/241-348 AC Q1J0P7.1
#=GS A0A842HAM0_9BACT/1049-1119 AC A0A842HAM0.1
#=GS A0A511N5H9_DEIC1/241-342 AC A0A511N5H9.1
#=GS A0A7C9M6Q8_9DEIO/241-349 AC A0A7C9M6Q8.1
#=GS RPOC_DEIRA/242-358 AC Q9RVW0.1
#=GS C1D0R9_DEIDV/241-351 AC C1D0R9.1
#=GS A0A1U7NV64_9DEIO/264-384 AC A0A1U7NV64.1
#=GS H8GZU2_DEIGI/241-353 AC H8GZU2.1
#=GS A0A221SUB9_9DEIO/241-352 AC A0A221SUB9.1
#=GS F2NL10_MARHT/242-340 AC F2NL10.1
#=GS D7BBT9_MEISD/242-339 AC D7BBT9.1
#=GS E8U5Y6_DEIML/241-341 AC E8U5Y6.1
#=GS D7CTN6_TRURR/241-342 AC D7CTN6.1
#=GS A0A418V6H3_9DEIO/241-352 AC A0A418V6H3.1
#=GS A0A2Z3JS50_9DEIO/241-346 AC A0A2Z3JS50.1
#=GS A0A8J2BGZ6_9BACT/1019-1119 AC A0A8J2BGZ6.1
#=GS A0A318S655_9DEIO/241-341 AC A0A318S655.1
#=GS A0A399EQC0_9DEIN/243-343 AC A0A399EQC0.1
#=GS RPOC_THET8/242-338 AC Q8RQE8.1
#=GS A0A399FCB1_9DEIN/243-341 AC A0A399FCB1.1
#=GS A0A0F7JPK1_9DEIO/241-349 AC A0A0F7JPK1.1
#=GS K9ZZC4_DEIPD/241-341 AC K9ZZC4.1
#=GS F0RM27_DEIPM/241-364 AC F0RM27.1
#=GS A0A120HT15_9DEIN/242-338 AC A0A120HT15.1
#=GS A0A1W1VKV3_9DEIO/241-344 AC A0A1W1VKV3.1
#=GS A0A399EM33_9DEIN/243-341 AC A0A399EM33.1
#=GS A0A072N7Y0_9DEIO/241-350 AC A0A072N7Y0.1
A0A172T7S6_9DEIO/241-360 .......LAELEADITITAPVDGTAFLHDL.GEDSVMV.DIR....Asvd...apePSEDeeeev.............aaaplgEVLARVYLPHGMNVQVAQGEIVEAGATLADASAGSRLRVSRDSRLSAVTFPKKkGDVTVT.AHWMR..........
A0A2K3UVB1_9DEIO/241-367 .......IAELEADVTIAAPVAGTAFLHDM.GEDSVMV.ELR....EsaavpnvsaS--Dededgeda.......epaaptpagEVIARIYIPHGMDVQVAYGEIVEAGAVLAQAKSGQRLRVSRDSSLSAVTFPKKkGDVTLT.AHWTR..........
E4U7Z4_OCEP5/242-341 .......IAELADPFVFESEAAGVAEVLEW.DEGALVR.-LR....D.........PESD........................EVVAVYLVPVGFALKVGHGELVSAGDPIAAAEP-GAVRLPRGVKVTELEAEEE.GDLVYL.SMTV-e.........
A0A841I6W5_9DEIO/241-341 .......VAELSGDYTFTAPAGGVVHLVEL.GENSYIV.QLL....D.........AA-E........................NSVADVYLPVGTHLEVVEGQIVEAGEPLATATSGGLLRTSRASSLSDVTSKKR.GQELEI.SVT--vn........
RPOC_DEIGD/241-348 .......LAELEGDVQITAPVDGTAFLLDM.GEDSVLV.ELR....D.........SAAEda...................aqgEVLARVYIPHGMNVQVAEGEVVEAGSVLATAAAGDRLRVSRDSRLSNVNFPKKkGDVKVT.AHWTR..........
A0A842HAM0_9BACT/1049-1119 dstgria----------------TVVIEHK.EDLNPMV.EIK....D.........PATG........................KVLATYTVPTGAQVSVAEGDDIAPGALLAKTP---------------------.------.-----rsasktqdit
A0A511N5H9_DEIC1/241-342 .......LADLTADFELTAPVAGTAFVTDL.GEDSVLI.EIK....D.........PN-N........................KILATLYVPHGTEVFVAHGEIVEEGTLLAKAAAGKTLRTSRVSNLSGVGTRKK.SGLTEVtVNW--tr........
A0A7C9M6Q8_9DEIO/241-349 .......LAELESDVQITAPVDGTIVLHEL.GEDSVMV.ELR....E.........GVDEegt..................psgEVLARVYVPHGLNVQVVHGEIVEAGAVLADASAGTRLRVSRDSRLSGVTFPKKkGDVAVK.AHWTR..........
RPOC_DEIRA/242-358 .......LAELEQDVQITAPVAGTVFMHDL.GEDSVMI.ELR....Egv.....eaN--Dsdeeea............adpirgEVLARVYVPHGMNVQVAEGEVIEAGALLADASEGARLRVSRDSNLSGVTFPKKkGDVTVT.AHWTR..........
C1D0R9_DEIDV/241-351 .......LAELEADVQITAPVDGTAFLHDM.GEDSVMV.ELR....E.........SVSDsedd...............tpaqgEVLARVYIPHGMNVQVAHGEIVEAGALLAEASAGDRLRLSRDSRLSGVTFPKK.GDVKVT.AHWTR..........
A0A1U7NV64_9DEIO/264-384 .......LAELEADVSITAPVAGTAFLSEM.GEDSVMV.VIR....E.........SVDAapaeqdeng.....edievetplgEVLARVYVPQGMEVAVAHGEIIDAGAELASAKSGQRLRVSRDSRLSEVKLPKK.GDPTVT.AHWTR..........
H8GZU2_DEIGI/241-353 .......LAELEQDVQFTAPVAGTVYLHEM.GEDSVMV.ELR....E.........QTAAagdde..............aapmgEVLARVYVPHGMDVQVVYGEIVDAGAVLAEAKSGSRLRVSRDSSLSGVTFPKKkGDVTVT.AHWTR..........
A0A221SUB9_9DEIO/241-352 .......LAELEEDVSITAPVDGTAFLLEM.GEDSVMV.EIR....Et......veA--Egdda...............daaqgEVLSRVYVPHGMNVQVANGEIIEAGAVLADAQSGTRLRVSRDSRLSEVQIPKK.GDVKLT.AHWTR..........
F2NL10_MARHT/242-340 .......LAELDAPFELRAEEGGVAEVLEW.EEGALVR.-LR....D.........PESE........................EVSAVYLVPVGFELLVGAGELVEPGTVLARGE--GLVRMPRNVGVSEVEAEDE.DGQVHL.SLTV-e.........
D7BBT9_MEISD/242-339 .......LAELSEKHQIKSEDSGAVQIVEF.EEGALLK.-IV....D.........PDTG........................TVSVVYFLPVGFKAKVGEGELVSKGEVIAEGK--GLIRMPRTVRVSEVEASGK.KEVEL-.-----sltle.....
E8U5Y6_DEIML/241-341 .......LAELTEDVRITAPLAGIAFMHDL.GEDSVVV.ELR....D.........-EDD........................DVMARVYVPHGMNVQIAQGEKLDVGAVIATASSGSRLRVSRDSRLAGVTFPKK.GFVKVT.AHWER..........
D7CTN6_TRURR/241-342 .......LAELTSDWSLQAKAEGVVELLPIgTEGALLN.-LR....N.........PDDD........................EVTAAYVLPAGIELVTGDGEYVEAGNELARAAAGTTLRIPRDGEASLVRSRKR.GPETEL.TLLV-k.........
A0A418V6H3_9DEIO/241-352 .......LAELEADVQLTAPVDGVVNVLEM.GEDSVML.EIR....E.........RAEEsdeed..............aapfgDVISRVYVPHGMDVNVVYGEIVAAGDVLATAKSGNRLRVSRDSSLSGVTFPKK.GDVTVN.AHWTR..........
A0A2Z3JS50_9DEIO/241-346 .......LGELEEAVQITAPMSATAFLHDM.GEDSVMV.ELRgeaeE.........AEQG........................EVLSRIYIPHGMDVQVANGEVVEAGAVLARADAGARLRVSRDSRLSNVTLPKK.GDAKVT.AHWNR..........
A0A8J2BGZ6_9BACT/1019-1119 .dpynip---------ILTEKSGIVEFRDI.KEGETMKrELN....E.........VTKQvetviiehkhdlhpqivildektgEVLASYSIPAGAHIEVKEGEKVEAGKRLAKTP---------------------.------.-----rkvvktkdi.
A0A318S655_9DEIO/241-341 .......IAEPEADLSINAPVDGIAFLHDL.GEDSVLV.DLQ....S.........-DDG........................EVLARVYVPHGMEVAVAEGERVESGAVLATAPAGARLRTSRASRLEGVKTSKK.GDTTAA.VHWTR..........
A0A399EQC0_9DEIN/243-343 .......LAEIAEKHQILSEEAGAVQIVEW.EEGALIK.-IL....D.........PDTS........................TVSAVYFLPVGFRPKVGEGELVGKGEVLAEGK--GLVRMPRHVKISELEASGK.RTVEL-.-----svtlewte..
RPOC_THET8/242-338 .......LAELPEPYLFRAEEEGVVELKEL.EEGAFLV.-LR....R.........--ED........................EPVATYFLPVGMTPLVVHGEIVEKGQPLAEAK--GLLRMPRQVRAAQVEAEEE.GETVYL.TLF--le........
A0A399FCB1_9DEIN/243-341 .......IADLAEGYQLKSEESGAVDIEEI.GDGALLK.-IR....D.........PETE........................AVAALYLIPAGMKPKVGQGELVGKGEVIAQGK--GQLRLPKGLKVVEVEPSGK.KEVTLT.FT---ler.......
A0A0F7JPK1_9DEIO/241-349 .......LAELESDVQITAPVDGTVVLHEM.GEDSVMV.ELR....E.........GVDEegt..................psgEVLARVYIPHGMNVQVVHGEIVEAGATLADAASGTRLRVSRDSRLSGVTFPKKkGDVQVT.AHWTR..........
K9ZZC4_DEIPD/241-341 .......LAELEEGYTITSPVDGIAFLHDL.GEDSVLV.DVR....S.........-DED........................EILARVYVPHGMDVTVAQGERLEAGTALATATSGARLRVSRASRLENLKTGKK.GDTTVT.LHWNR..........
F0RM27_DEIPM/241-364 .......LAELEEAVTIAAPVAGVAFLKEM.GEDSVML.ELR....E.........QVDEpesagegedge..daapakkapkaKVLASVYIPHGMDVQVVHGEIVDEGAVLAQAAAGALLRVSRDSRLEGVTFSKK.GNVSLT.AHWNR..........
A0A120HT15_9DEIN/242-338 .......LAELPEPYLFRAEEEGVVELREL.EEGAFLV.-LR....Q.........--ED........................EPVATYFLPVGMTPLVVHGEIVEKGQPLAEAK--GLLRMPRQVRAAQVEAEEE.GETVYL.TLF--le........
A0A1W1VKV3_9DEIO/241-344 .......LAELESDVQLASPVDGTAFLQPM.GEDSVMV.LLR....D........gSEDG........................EVLARVYVPHGMELQIAEGEVLEAGATIATASAGGRLRVSRDSRLSGVTFPKKkGDVQVT.AHWTR..........
A0A399EM33_9DEIN/243-341 .......IAELEASYQIVSEDAGAVQVEEL.GDGALIR.-VL....D.........PETG........................EVGGLYLIPAGMHLKVGQGELVGQGDVLAQGK--GQLRMPRGLKVVGLEAEAH.KKEVHL.SFT--le........
A0A072N7Y0_9DEIO/241-350 .......LAELEEDVQVTAPVDGTAFLREL.GEDSVLV.ELR....G.........PAAEede.................aslgEVLARVYVPHGMNVVVAEGEIVEAGGVLATASAGDRLRVSRESHLSEVTFPKKkGDVKVT.VHWTR..........
#=GC seq_cons .......LAEL-tchplsAPssGsshLc-h.GEDSVhV.-LR....-.........sss-........................EVlAplYlPpGMpVpVucGElVEAGslLApApuGspLRlSRsS+LStVphsKK.G-lpls.uaWs...........
//
