Structure of PDB 6m6c Chain D Binding Site BS03

Receptor Information
>6m6c Chain D (length=1305) Species: 300852 (Thermus thermophilus HB8) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
KEVRKVRIALASPEKIRSWSYGEVEKPETINYRTLKPERDGLFDERIFGP
IKDYECACGKYKRQRFEGKVCERCGVEVTKSIVRRYRMGHIELATPAAHI
WFVKDVPSKIGTLLDLSATELEQVLYFSKYIVLDPKGAILNGVPVEKRQL
LTDEEYRELRYGKQETYPLPPGVDALVKDGEEVVKGQELAPGVVSRLDGV
ALYRFPREPASILVVKARVYPFEDDVEVSTGDRVAPGDVLADGGKVKSDV
YGRVEVDLVRNVVRVVESYDIDARMGAEAIQQLLKELDLEALEKELLEEM
KHPSRARRAKARKRLEVVRAFLDSGNRPEWMILEAVPVLPPDLRPMVQVD
GGRFATSDLNDLYRRLINRNNRLKKLLAQGAPEIIIRNEKRMLQEAVDAL
LDNGRRGAPVTNPGSDRPLRSLTDILSGKQGRFRQNLLGKRVDYSGRSVI
VVGPQLKLHQCGLPKRMALELFKPFLLKKMEEKGIAPNVKAARRMLERQR
DIKDEVWDALEEVIHGKVVLLNRAPTLHRLGIQAFQPVLVEGQSIQLHPL
VCEAFNADFDGDQMAVHVPLSSFAQAEARIQMLSAHNLLSPASGEPLAKP
SRDIILGLYYITQVRKEKKGAGLEFATPEEALAAHERGEVALNAPIKVAG
RETSVGRLKYVFANPDEALLAVAHGIVDLQDVVTVRYMGKRLETSPGRIL
FARIVAEAVEDEKVAWELIQLDVPQEKNSLKDLVYQAFLRLGMEKTARLL
DALKYYGFTFSTTSGITIGIDDAVIPEEKKQYLEEADRKLLQIEQAYEMG
FLTDRERYDQILQLWTETTEKVTQAVFKNFEENYPFNPLYVMAQSGARGN
PQQIRQLCGLRGLMQKPSGETFEVPVRSSFREGLTVLEYFISSHGARKGG
ADTALRTADSGYLTRKLVDVTHEIVVREADCGTTNYISVPLFQPDEVTRS
LRLRKRADIEAGLYGRVLAREVEVLGVRLEEGRYLSMDDVHLLIKAAEAG
EIQEVPVRSPLTCQTRYGVCQKCYGYDLSMARPVSIGEAVGIVAAQSIGE
PGTQLTQGLPRVIELFEARRPKAKAVISEIDGVVRIEETEEKLSVFVESE
GFSKEYKLPKEARLLVKDGDYVEAGQPLTRGAIDPHQLLEAKGPEAVERY
LVEEIQKVYRAQGVKLHDKHIEIVVRQMMKYVEVTDPGDSRLLEGQVLEK
WDVEALNERLIAEGKTPVAWKPLLMGVTKSALSTKSWLSAASFQNTTHVL
TEAAIAGKKDELIGLKENVILGRLIPAGTGSDFVRFTQVVDQKTLKAIEE
ARKEA
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain6m6c Chain D Residue 2001 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6m6c Structural basis of Mfd-dependent transcription termination.
Resolution3.1 Å
Binding residue
(original residue number in PDB)		C1112 C1194 C1201 C1204
Binding residue
(residue number reindexed from 1)		C931 C1013 C1020 C1023
Annotation score1
Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0003899 DNA-directed 5'-3' RNA polymerase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016779 nucleotidyltransferase activity
GO:0034062 5'-3' RNA polymerase activity
GO:0046872 metal ion binding
Biological Process
GO:0006351 DNA-templated transcription
Cellular Component
GO:0000428 DNA-directed RNA polymerase complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6m6c, PDBe:6m6c, PDBj:6m6c
PDBsum6m6c
PubMed33068413
UniProtQ8RQE8|RPOC_THET8 DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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