Structure of PDB 6m6c Chain D Binding Site BS05

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 IDMG
InChIInChI=1S/Mg/q+2
InChIKeyJLVVSXFLKOJNIY-UHFFFAOYSA-N
SMILES
SoftwareSMILES
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Mg+2]
CACTVS 3.341[Mg++]
FormulaMg
NameMAGNESIUM ION
ChEMBL
DrugBankDB01378
ZINC
PDB chain6m6c Chain D Residue 2003 [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)		D739 D741 D743
Binding residue
(residue number reindexed from 1)		D558 D560 D562
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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