Structure of PDB 7bef Chain F Binding Site BS02

Receptor Information
>7bef Chain F (length=496) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGIN
QVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAESIDPELA
REKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFD
YLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFN
AAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSI
GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD
KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRIS
RQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS
HLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDM
NTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD
Ligand information
>7bef Chain N (length=73) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
tcaggtatagcactgaatgacaaaacaaaatggtcgcctgcgactagaat
acactgtgctatcatcattaact
Receptor-Ligand Complex Structure
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PDB7bef Structures of Class I and Class II Transcription Complexes Reveal the Molecular Basis of RamA-Dependent Transcription Activation.
Resolution4.5 Å
Binding residue
(original residue number in PDB)		M105 L110 E116 A382 N383 R385 L386 S389 K392 T395 F401 Y425 K426 S428 T429 Y430 Q437 P453 H455
Binding residue
(residue number reindexed from 1)		M27 L32 E38 A265 N266 R268 L269 S272 K275 T278 F284 Y308 K309 S311 T312 Y313 Q320 P336 H338
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003700 DNA-binding transcription factor activity
GO:0005515 protein binding
GO:0016987 sigma factor activity
Biological Process
GO:0006351 DNA-templated transcription
GO:0006352 DNA-templated transcription initiation
GO:0006355 regulation of DNA-templated transcription
GO:0009408 response to heat
GO:0010468 regulation of gene expression
GO:0045892 negative regulation of DNA-templated transcription
GO:2000142 regulation of DNA-templated transcription initiation
Cellular Component
GO:0000345 cytosolic DNA-directed RNA polymerase complex
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:1903865 sigma factor antagonist complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:7bef, PDBe:7bef, PDBj:7bef
PDBsum7bef
PubMed34761556
UniProtP00579|RPOD_ECOLI RNA polymerase sigma factor RpoD (Gene Name=rpoD)

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