Structure of PDB 4yln Chain L

Receptor sequence

>4ylnL (length=497) Species: 562 (Escherichia coli) [Search protein sequence]

AAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGIN
QVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAENSIDPEL
AREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQF
DYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWF
NAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMS
IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRI
SRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDED
SHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGID
MNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD

3D structure

PDB

4yln Crystal Structures of the E. coli Transcription Initiation Complexes with a Complete Bubble.

Chain

Resolution

5.5 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	L	R99 M102 L110 N383 R385 L386 I388 S389 K392 F401 R423 Y425 K426 S428 T429 Y430 T432 W434 Q437 R451 P453 H455 R554 V582 T583 R586	R21 M24 L32 N267 R269 L270 I272 S273 K276 F285 R307 Y309 K310 S312 T313 Y314 T316 W318 Q321 R335 P337 H339 R438 V466 T467 R470
BS02	dna	L	Q437 N461 N464 R465 R468 R562 T572 L573 E574 E585 R588	Q321 N345 N348 R349 R352 R446 T456 L457 E458 E469 R472

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

View graph for
Molecular Function

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Biological Process

View graph for
Cellular Component

External links

PDB	RCSB:4yln, PDBe:4yln, PDBj:4yln
PDBsum	4yln
PubMed	25866247
UniProt	P00579\|RPOD_ECOLI RNA polymerase sigma factor RpoD (Gene Name=rpoD)

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