Structure of PDB 7w5x Chain D Binding Site BS02

Receptor Information
>7w5x Chain D (length=1334) 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
WFLKSLSRIGLLLDMPLRDIERVLYFESYVVIEGGMTNLERQQILTEEQY
LDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLREELNETNSETKRK
KLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLVPLDGGRFATSDL
NDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAVDALLDNGRRGRA
ITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRSVITVGYLRLHQC
GLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVEREEAVVWDILDEVI
REHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLVCAAYNADFDGDQM
AVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPSQDVVLGLYYMTRD
CVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRITEYEKDANGELVAK
TSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISKMLNTCYRILGLKP
TVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEIISEAEAEVAEIQE
QFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQTETVINRDGQEEKQ
VSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGSIIETPITANFREG
LNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDVAQDLVVTEDDCGT
HEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGTADILVPRNTLLHE
QWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDLARGHIINKGEAIG
VIAAQSIGEPGTQLTMSSIQVKNKGSIKLSNVKSVVNSSGKLVITSRNTE
LKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGETVANWDPHTMPVITEV
SGFVRFTDMIDGQTITRQTDELTGLSSLVVLDSAERTAGGKDLRPALKIV
DAQGNDVLIPGTDMPAQYFLPGKAIVQLEDGVQISSGDTLARIPQGLPRV
ADLFEARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSPYEEMIPK
WRQLNVFEGERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVYR
LQGVKINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRVKIANREL
EANGKVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRD
ELRGLKENVIVGRLIPAGTGYAYHQDRMRRRAAG
Ligand information
>7w5x Chain 2 (length=75) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
tgcatccgtgagtcgagggtaataactgcttttacgagcttgcgaaaact
gtaaacgcttatccacccgtgcgat
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB7w5x Structural basis of three different transcription activation strategies adopted by a single regulator SoxS.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		R259 S319 N320 K334 R346 T790 A791 Y795 E1327
Binding residue
(residue number reindexed from 1)		R244 S304 N305 K319 R331 T774 A775 Y779 E1285
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:7w5x, PDBe:7w5x, PDBj:7w5x
PDBsum7w5x
PubMed36243985
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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