Structure of PDB 7w5y Chain D Binding Site BS01

Receptor Information
>7w5y Chain D (length=1335) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
EEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPERDGLFCARIFGP
VKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERMGHIELASPTAHI
WFLKSSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQQILTEEQYL
DALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRKK
LTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDLN
DLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRGRAI
TGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGPYLRLHQC
GLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEVI
REHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQM
AVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRD
CVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRITEYEKDANGELVAK
TSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLKP
TVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAEVAEIQE
QFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQ
VSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREG
LNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGT
HEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHE
QWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDLARGHIINKGEAIG
VIAAQSIGEPGTQLTMSSIQVKNKGSIKLSNVKSVVNSSGKLVITSRNTE
LKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEV
SGFVRFTDMIDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKIV
DAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDTLARIPQGLPRV
ADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIP
KWRQLNVFEGERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVY
RLQGVKINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRVKIANRE
LEANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKR
DELRGLKENVIVGRLIPAGTGYAYHQDRMRRRAAG
Ligand information
>7w5y Chain 1 (length=83) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gatttgatcgattgagccttccagtccttcgggactggaatttttttgtt
cggagaactataatgggagctgtcacggatgca
Receptor-Ligand Complex Structure
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PDB7w5y Structural basis of three different transcription activation strategies adopted by a single regulator SoxS.
Resolution4.2 Å
Binding residue
(original residue number in PDB)		R47 R133 R1148
Binding residue
(residue number reindexed from 1)		R33 R117 R1107
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
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:7w5y, PDBe:7w5y, PDBj:7w5y
PDBsum7w5y
PubMed36243985
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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