Structure of PDB 8reb Chain D Binding Site BS01

Receptor Information
>8reb Chain D (length=1330) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
LLKFLKAQTKTEEFDAIKIALASPDMIRSWSFGEVKKPETINYRTFKPER
DGLFCARIFGPVKDYECLCGKYKRLKHRGVICEKCGVEVTQTKVRRERMG
HIELASPTAHIWFLKSLPSRIGLLLDMPLRDIERVLYFESYVVIEGGMTN
LERQQILTEEQYLDALEEFGDEFDAKMGAEAIQALLKSMDLEQECEQLRE
ELNETNSETKRKKLTKRIKLLEAFVQSGNKPEWMILTVLPVLPPDLRPLV
PLDGGRFATSDLNDLYRRVINRNNRLKRLLDLAAPDIIVRNEKRMLQEAV
DALLDNGRRGRAITGSNKRPLKSLADMIKGKQGRFRQNLLGKRVDYSGRS
VITVGPYLRLHQCGLPKKMALELFKPFIYGKLELRGLATTIKAAKKMVER
EEAVVWDILDEVIREHPVLLNRAPTLHRLGIQAFEPVLIEGKAIQLHPLV
CAAYNADFDGDQMAVHVPLTLEAQLEARALMMSTNNILSPANGEPIIVPS
QDVVLGLYYMTRDCVNAKGEGMVLTGPKEAERLYRSGLASLHARVKVRIT
EYEKDANGELVAKTSLKDTTVGRAILWMIVPKGLPYSIVNQALGKKAISK
MLNTCYRILGLKPTVIFADQIMYTGFAYAARSGASVGIDDMVIPEKKHEI
ISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKAMMDNLQT
ETVINRDGQEEKQVSFNSIYMMADSGARGSAAQIRQLAGMRGLMAKPDGS
IIETPITANFREGLNVLQYFISTHGARKGLADTALKTANSGYLTRRLVDV
AQDLVVTEDDCGTHEGIMMTPVIEGGDVKEPLRDRVLGRVTAEDVLKPGT
ADILVPRNTLLHEQWCDLLEENSVDAVKVRSVVSCDTDFGVCAHCYGRDL
ARGHIINKGEAIGVIAAQSIGEPGTQLTMAAESSIQVKNKGSIKLSNVKS
VVNSSGKLVITSRNTELKLIDEFGRTKESYKVPYGAVLAKGDGEQVAGGE
TVANWDPHTMPVITEVSGFVRFTDMIDGQTITRQSSLVVLDSAERRPALK
IVDAQGNDVAQYFLPGKAIVQLEDGVQISSGDTLARIPQGGLPRVADLFE
ARRPKEPAILAEISGIVSFGKETKGKRRLVITPVDGSDPYEEMIPKWRQL
NVFEGERVERGDVISDGPEAPHDILRLRGVHAVTRYIVNEVQDVYRLQGV
KINDKHIEVIVRQMLRKATIVNAGSSDFLEGEQVEYSRVKIANRELEANG
KVGATYSRDLLGITKASLATESFISAASFQETTRVLTEAAVAGKRDELRG
LKENVIVGRLIPAGTGYAYHQDRMRRRAAG
Ligand information
>8reb Chain N (length=43) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gctggcacgacttttgcactcgtatatcatgctgttgcacatt
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB8reb Structural basis of sigma 54 displacement and promoter escape in bacterial transcription.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		R133 R281 R1148 K1170 K1172
Binding residue
(residue number reindexed from 1)		R130 R278 R1102 K1124 K1126
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:8reb, PDBe:8reb, PDBj:8reb
PDBsum8reb
PubMed38170755
UniProtP0A8T7|RPOC_ECOLI DNA-directed RNA polymerase subunit beta' (Gene Name=rpoC)

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