Structure of PDB 7bef Chain F

Receptor sequence

>7befF (length=496) Species: 83333 (Escherichia coli K-12) [Search protein sequence]

AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGIN
QVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAESIDPELA
REKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFD
YLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFN
AAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSI
GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD
KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRIS
RQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS
HLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDM
NTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

3D structure

PDB

7bef Structures of Class I and Class II Transcription Complexes Reveal the Molecular Basis of RamA-Dependent Transcription Activation.

Chain

Resolution

4.5 Å

3D
structure

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Enzymatic activity

Enzyme Commision number

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	F	Y394 N396 R397 R436 Q437 E458 N461 K462 R465 E503 I511 G512 T572 L573 E574 R584 R588	Y277 N279 R280 R319 Q320 E341 N344 K345 R348 E386 I394 G395 T455 L456 E457 R467 R471
BS02	dna	F	M105 L110 E116 A382 N383 R385 L386 S389 K392 T395 F401 Y425 K426 S428 T429 Y430 Q437 P453 H455	M27 L32 E38 A265 N266 R268 L269 S272 K275 T278 F284 Y308 K309 S311 T312 Y313 Q320 P336 H338

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

View graph for
Cellular Component

External links

PDB	RCSB:7bef, PDBe:7bef, PDBj:7bef
PDBsum	7bef
PubMed	34761556
UniProt	P00579\|RPOD_ECOLI RNA polymerase sigma factor RpoD (Gene Name=rpoD)

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