Structure of PDB 8f1j Chain J

Receptor sequence
>8f1jJ (length=1349) Species: 562 (Escherichia coli) [Search protein sequence]
DLLKFLKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPE
RDGLFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERM
GHIELASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGGMT
NLERQQILTEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLR
EELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPL
VPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEA
VDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGR
SVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVE
REEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPL
VCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVP
SQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRI
TEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAIS
KMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHE
IISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQ
TETVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDG
SIIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVD
VAQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPG
TADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRD
LARGHIINKGEAIGVIAAQSIGEPGTQLTMRTSSIQVKNKGSIKLSNVKS
VVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGE
TVANWDPHTMPVITEVSGFVRFTDMIDGQTITRQTDELTGLSSLVVLDSA
ERTAGGKDLRPALKIVDAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQI
SSGDTLARIPQGGLPRVADLFEARRPKEPAILAEISGIVSFGKETKGKRR
LVITPVDGSDPYEEMIPKWRQLNVFEGERVERGDVISDGPEAPHDILRLR
GVHAVTRYIVNEVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSDF
LEGEQVEYSRVKIANRELEANGKVGATYSRDLLGITKASLATESFISAAS
FQETTRVLTEAAVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRMRRR
3D structure
PDB8f1j A general mechanism for transcription bubble nucleation in bacteria.
ChainJ
Resolution2.6 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.7.7.6: DNA-directed RNA polymerase.
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna J E211 T790 A791 Y795 Q1326 E1327 E209 T788 A789 Y793 Q1302 E1303
BS02 MG J D460 D462 D464 D458 D460 D462
BS03 ZN J C70 C85 C68 C83
BS04 ZN J C814 C888 C898 C812 C886 C896
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
GO:0006352 DNA-templated transcription initiation
GO:0006879 intracellular iron ion homeostasis
GO:0009408 response to heat
GO:0031564 transcription antitermination
GO:0032784 regulation of DNA-templated transcription elongation
GO:0036460 cellular response to cell envelope stress
GO:0042128 nitrate assimilation
GO:0044780 bacterial-type flagellum assembly
GO:0046677 response to antibiotic
GO:0048870 cell motility
GO:0071973 bacterial-type flagellum-dependent cell motility
GO:0090605 submerged biofilm formation
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0000345 cytosolic DNA-directed RNA polymerase complex
GO:0000428 DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0008023 transcription elongation factor complex
GO:0016020 membrane

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:8f1j, PDBe:8f1j, PDBj:8f1j
PDBsum8f1j
PubMed36972428
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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