Structure of PDB 5vt0 Chain L Binding Site BS01

Receptor Information
>5vt0 Chain L (length=471) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITY
LLEQYDRVEAEEARLSDLITGFVDIDPELAREKFAELRAQYVVTRDTIKH
ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCV
EQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQ
KLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAK
KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS
IADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPED
KIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA
ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEA
KALRKLRHPSRSEVLRSFLDD
Ligand information
>5vt0 Chain R (length=112) [Search RNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
cggcacaugcgauauuagaauguggcgcuccgcgguuggugagcaugcuc
gguccguccgagaagccuuaaaacugcgacgacacauucaccuugaacca
aggcguguaccg
<<<.<<<<<<.......<<<<<<<.<<...<<<<<<<..........<<<
<<.....>>>>>.........>>>>>>>.>>.>>>>>>>...........
..>>>>>>.>>>
Receptor-Ligand Complex Structure
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PDB5vt0 6S RNA Mimics B-Form DNA to Regulate Escherichia coli RNA Polymerase.
Resolution3.78 Å
Binding residue
(original residue number in PDB)		V98 R385 S389 K392 Y394 S428 T429 R436 H455 E515 R554 R562 T572 L573 E574 R584 R586 R588 Q589 R596 K597 H600
Binding residue
(residue number reindexed from 1)		V5 R243 S247 K250 Y252 S286 T287 R294 H313 E373 R412 R420 T430 L431 E432 R442 R444 R446 Q447 R454 K455 H458
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003700 DNA-binding transcription factor activity
GO:0016987 sigma factor activity
Biological Process
GO:0006352 DNA-templated transcription initiation
GO:0006355 regulation of DNA-templated transcription

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Molecular Function
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Biological Process
External links
PDB RCSB:5vt0, PDBe:5vt0, PDBj:5vt0
PDBsum5vt0
PubMed28988932
UniProtP00579|RPOD_ECOLI RNA polymerase sigma factor RpoD (Gene Name=rpoD)

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