eF-site ID 4mq9-ABCDEF PDB Code 4mq9 Chain A, B, C, D, E, F click to enlarge Title Crystal structure of Thermus thermophilus RNA polymerase holoenzyme in complex with GE23077 Classification TRANSCRIPTION, TRANSFERASE/ANTIBIOTIC Compound DNA-directed RNA polymerase subunit alpha Source ORGANISM_SCIENTIFIC: Thermus thermophilus; Sequence A:  LKAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILL SSIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKEL VVRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNP DLHIATLEEGGRLNMEVRVDRGVGYVPAEKHGIKDRINAI PVDAVFSPVRRVAFQVEDTRLGQRTDLDKLTLRIWTDGSV TPLEALNQAVEILREHLTYFSNPQAA B:  KAPVFTVRTQGREYGEFVLEPLERGFGVTLGNPLRRILLS SIPGTAVTSVYIEDVLHEFSTIPGVKEDVVEIILNLKELV VRFLNPSLQTVTLLLKAEGPKEVKARDFLPVADVEIMNPD LHIATLEEGGRLNMEVRVDRGVGYVPAERINAIPVDAVFS PVRRVAFQVEDTRLGQRTDLDKLTLRIWTDGSVTPLEALN QAVEILREHLTYFSNPQAAAVAAP C:  MEIKRFGRIREVIPLPPLTEIQVESYRRALQADVPPEKRE NVGIQAAFRETFPILDFLEYRLGEPPFPQDECREKDLTYQ APLYARLQLIHKDTGLIKEDEVFLGHIPLMTEDGSFIING ADRVIVSQIHRSPGVYFTPDPARPGRYIASIIPLPKRGPW IDLEVEPNGVVSMKVNKRKFPLVLLLRVLGYDQETLAREL GAYGELVQGLMDESVFAMRPEEALIRLFTLLRPGDPPKRD KAVAYVYGLIADPRRYDLGEAGRYKAEEKLGIRLSGRTLA DEVFLPTLRYLFALTAGVPGHEVDDIDHLGNRRIRTVGEL MTDQFRVGLARLARGVRERMLMGSEDSLTPAKLVNSRPLE AAIREFFSRSQLSQFKDETNPLSSLRHKRRISALGPGGLT RERAGFDVRDVHRTHYGRICPVETPEGANIGLITSLAAYA RVDELGFIRTPYRRVVGGVVTDEVVYMTATEEDRYTIAQA NTPLEGNRIAAERVVARRKGEPVIVSPEEVEFMDVSPKQV FSVNTNLIPFLEHDDANRALMGSNMQTQAVPLIRAQAPVV MTGLEERVVRDSLAALYAEEDGEVAKVDGNRIVVRYEDGR LVEYPLRRFYRSNQGTALDQRPRVVVGQRVRKGDLLADGP ASENGFLALGQNVLVAIMPFDGYNFEDAIVISEELLKRDF YTSIHIERYEIEARDTKLGPERITRDIPHLSEAALRDLDE EGVVRIGAEVKPGDILVGRTSFKGESEPTPEERLLRSIFG EKARDVKDTSLRVPPGEGGIVVRTVRLRRGDPGVELKPGV REVVRVYVAQKRKLQVGDKLANRHGNKGVVAKILPVEDMP HLPDGTPVDVILNPLGVPSRMNLGQILETHLGLAGYFLGQ RYISPIFDGAKEPEIKELLAQAFEVYFGKRKGEGFGVDKR EVEVLRRAEKLGLVTPGKTPEEQLKELFLQGKVVLYDGRT GEPIEGPIVVGQMFIMKLYHMVEDKMHARSTGPYSLITQQ PLGGKAQFGGQRFGEMEVWALEAYGAAHTLQEMLTLKSDD IEGRNAAYEAIIKGEDVPEPSVPESFRVLVKELQALALDV QTLDEKDNPVDIFEGLASKR D:  KKEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPER DGLFDERIFGPIKDYECACGKYKRQRFEGKVCERCGVEVT KSIVRRYRMGHIELATPAAHIWFVKDVPSKIGTLLDLSAT ELEQVLYFSKYIVLDPKGAILNGVPVEKRQLLTDEEYREL RYGKQETYPLPPGVDALVKDGEEVVKGQELAPGVVSRLDG VALYRFPRRVRVEYWTEPKDYRVQPHMNVVVPEGARVEAG DKIVAAIDPEEEVIAEAEGVVHLHEPASILVVKARVYPFE DDVEVSTGDRVAPGDVLADGGKVKSDVYGRVEVDLVRNVV RVVESYDIDARMGAEAIQQLLKELDLEALEKELLEEMKHP SRARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPDL RPMVQVDGGRFATSDLNDLYRRLINRNNRLKKLLAQGAPE IIIRNEKRMLQEAVDALLDNGRRGAPVTNPGSDRPLRSLT DILSGKQGRFRQNLLGKRVDYSGRSVIVVGPQLKLHQCGL PKRMALELFKPFLLKKMEEKGIAPNVKAARRMLERQRDIK DEVWDALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQ SIQLHPLVCEAFNADFDGDQMAVHVPLSSFAQAEARIQML SAHNLLSPASGEPLAKPSRDIILGLYYITQVRKEKKGAGL EFATPEEALAAHERGEVALNAPIKVAGRETSVGRLKYVFA NPDEALLAVAHGIVDLQDVVTVRYMGKRLETSPGRILFAR IVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQAFLRLGM EKTARLLDALKYYGFTFSTTSGITIGIDDAVIPEEKKQYL EEADRKLLQIEQAYEMGFLTDRERYDQILQLWTETTEKVT QAVFKNFEENYPFNPLYVMAQSGARGNPQQIRQLCGLRGL MQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGGADT ALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQ PDEVTRSLRLRKRADIEAGLYGRVLAREVEVLGVRLEEGR YLSMDDVHLLIKAAEAGEIQEVPVRSPLTCQTRYGVCQKC YGYDLSMARPVSIGEAVGIVAAQSIGEPGTQLTMRTDITQ GLPRVIELFEARRPKAKAVISEIDGVVRIEETEEKLSVFV ESEGFSKEYKLPKEARLLVKDGDYVEAGQPLTRGAIDPHQ LLEAKGPEAVERYLVEEIQKVYRAQGVKLHDKHIEIVVRQ MMKYVEVTDPGDSRLLEGQVLEKWDVEALNERLIAEGKTP VAWKPLLMGVTKSALSTKSWLSAASFQNTTHVLTEAAIAG KKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQKTLKA IEEAR E:  AEPGIDKLFGMVDSKYRLTVVVAKRAQQLLRHGFKNTVLE PEERPKMQTLEGLFDDPNAVTWAMKELLTGRLVFGENLVP EDRLQKEMERLYP F:  SDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLS EITGLDPDLIREVVRAKILGSARVRHTLDPKTVEEIDQKL KSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYT GRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWI RQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELG REPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGD EKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSE REAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIENK ALRKLKYHESRTRKLRDFL Description Functional site 1) chain D residue 58 type sequence C description BINDING SITE FOR RESIDUE ZN D 1601 source : AC1 2) chain D residue 60 type sequence C description BINDING SITE FOR RESIDUE ZN D 1601 source : AC1 3) chain D residue 73 type sequence C description BINDING SITE FOR RESIDUE ZN D 1601 source : AC1 4) chain D residue 76 type sequence C description BINDING SITE FOR RESIDUE ZN D 1601 source : AC1 5) chain D residue 1112 type sequence C description BINDING SITE FOR RESIDUE ZN D 1602 source : AC2 6) chain D residue 1194 type sequence C description BINDING SITE FOR RESIDUE ZN D 1602 source : AC2 7) chain D residue 1201 type sequence C description BINDING SITE FOR RESIDUE ZN D 1602 source : AC2 8) chain D residue 1204 type sequence C description BINDING SITE FOR RESIDUE ZN D 1602 source : AC2 9) chain D residue 739 type sequence D description BINDING SITE FOR RESIDUE MG D 1603 source : AC3 10) chain D residue 741 type sequence D description BINDING SITE FOR RESIDUE MG D 1603 source : AC3 11) chain D residue 743 type sequence D description BINDING SITE FOR RESIDUE MG D 1603 source : AC3 12) chain C residue 444 type sequence P description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 13) chain C residue 445 type sequence E description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 14) chain C residue 446 type sequence G description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 15) chain C residue 448 type sequence N description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 16) chain C residue 557 type sequence R description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 17) chain C residue 560 type sequence M description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 18) chain C residue 563 type sequence N description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 19) chain C residue 567 type sequence Q description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 20) chain C residue 838 type sequence K description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 21) chain C residue 846 type sequence K description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 22) chain D residue 1088 type sequence T description BINDING SITE FOR CHAIN I OF GE23077 source : AC4 23) chain F residue 382-408 type prosite sequence TLEEVGAFFGVTRERIRQIENKALRKL description SIGMA70_2 Sigma-70 factors family signature 2. TleEVGaffgVTrerIrQIEnkaLrkL source prosite : PS00716 24) chain F residue 187-194 type prosite sequence LIEANLRL description CPSASE_2 Carbamoyl-phosphate synthase subdomain signature 2. LIEANLRL source prosite : PS00867 25) chain C residue 836-848 type prosite sequence GDKLANRHGNKGV description RNA_POL_BETA RNA polymerases beta chain signature. GdKLANrHGNKGV source prosite : PS01166 26) chain D residue 58 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 27) chain D residue 1201 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 28) chain D residue 1204 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 29) chain D residue 60 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 30) chain D residue 73 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 31) chain D residue 76 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 32) chain D residue 739 type BINDING sequence D description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 33) chain D residue 741 type BINDING sequence D description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 34) chain D residue 743 type BINDING sequence D description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 35) chain D residue 1112 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1 36) chain D residue 1194 type BINDING sequence C description BINDING => ECO:0000255|HAMAP-Rule:MF_01322 source Swiss-Prot : SWS_FT_FI1

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