Structure of PDB 6xav Chain J

Receptor sequence
>6xavJ (length=1338) Species: 83333 (Escherichia coli K-12) [Search protein sequence]
VKDLLKFLKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFK
PERDGLFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRE
RMGHIELASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGG
MTNLERQQILTEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQ
LREELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLR
PLVPLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQ
EAVDALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYS
GRSVITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKM
VEREEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLH
PLVCAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPII
VPSQDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASLHARVKV
RITEYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKA
ISKMLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKK
HEIISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDN
LQTETVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKP
DGSIIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRL
VDVAQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLK
PGTADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYG
RDLARGHIINKGEAIGVIAAQSIGEPGTQLTMRSSIQVKNKGSIKLSNVK
SVVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGG
ETVANWDPHTMPVITEVSGFVRFTDMIDGQTITRQTDELTGLSSLVVLDS
AERTAGGKDLRPALKIVDMPAQYFLPGKAIVQLEDGVQISSGDTLARIPQ
GGLPRVADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDP
YEEMIPKWRQLNVFEGERVERGDVISDGPEAPHDILRLRGVHAVTRYIVN
EVQDVYRLQGVKINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRV
KIANRELEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEA
AVAGKRDELRGLKENVIVGRLIPAGTGYAYHQDRMRRR
3D structure
PDB6xav Pre-termination Transcription Complex: Structure and Function.
ChainJ
Resolution7.7 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 R133 R314 R1148 R133 R314 R1113
BS02 dna J S210 T212 S319 R322 R346 T790 A791 Y795 Q1326 S210 T212 S319 R322 R346 T790 A791 Y795 Q1291
BS03 rna J K325 D464 K325 D464
BS04 MG J D460 D464 D460 D464
BS05 ZN J L71 C72 C85 C88 L71 C72 C85 C88
BS06 ZN J C814 C888 C898 C814 C888 C898
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:6xav, PDBe:6xav, PDBj:6xav
PDBsum6xav
PubMed33296676
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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