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Protein

DNA-binding protein StpA

Gene

stpA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

A DNA-binding protein that acts in a fashion similar to H-NS protein upon overexpression, represses a number of genes including the cryptic blg operon, hns, papB and the proU locus (PubMed:8890170). A subset of H-NS/StpA-regulated genes also require Hha for repression; Hha and Cnu (YdgT) increases the number of genes DNA bound by H-NS/StpA and may also modulate the oligomerization of the H-NS/StpA-complex (PubMed:23543115). Repression can be inhibited by dominant-negative mutants of StpA or H-NS (PubMed:8755860).3 Publications
(Microbial infection) Originally isolated as a suppressor of a splicing defect of the thymidylate synthase (td) gene from bacteriophage T4 (PubMed:1480493). Acts as an RNA chaperone, accelerating splicing of viral pre-mRNA. Binds preferentially to unstructured over structured RNA; does not have a detectable high-affinity RNA-binding site in the pre-mRNA. There do not seem to be any specific RNA targets in transcribed E.coli DNA (PubMed:17267410).2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
DNA bindingi112 – 117By similarity6

GO - Molecular functioni

  • DNA binding Source: EcoliWiki
  • protein dimerization activity Source: InterPro
  • RNA binding Source: UniProtKB-KW

GO - Biological processi

Keywordsi

Molecular functionChaperone, DNA-binding, RNA-binding
Biological processTranscription, Transcription regulation

Enzyme and pathway databases

BioCyciEcoCyc:EG11554-MONOMER

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-binding protein StpA
Alternative name(s):
H-NS homolog StpA
Gene namesi
Name:stpA1 Publication
Synonyms:hnsB
Ordered Locus Names:b2669, JW2644
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG11554 stpA

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
  • nucleoid Source: UniProtKB-SubCell

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Disruption phenotypei

No visible phenotype in rich medium; double hns-stpA mutants grow slower and have reduced viable cell counts compared to single hns mutants in MC1029 and MC4100 backgrounds (PubMed:8890170). In 0.3M NaCl a double hns-stpA deletion up-regulates 583 and down-regulates 86 genes, 363 of which are thought to have been horizontally acquired; 131 are also up-regulated in a double cnu-hha deletion (PubMed:23543115).2 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi26L → P: Partial loss of repressor function when overexpressed in the absence of hns. 1 Publication1
Mutagenesisi65 – 134Missing : Partial loss of repressor function when overexpressed in the absence of hns. 1 PublicationAdd BLAST70
Mutagenesisi97Y → C: Partial loss of repressor function when overexpressed in the absence of hns. 1 Publication1
Mutagenesisi116P → S: Partial loss of repressor function when overexpressed in the absence of hns. 1 Publication1
Mutagenesisi126G → V: Higher RNA chaperone activity than wild-type, decreased ability to bind structured RNA. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001685131 – 134DNA-binding protein StpAAdd BLAST134

Proteomic databases

PaxDbiP0ACG1
PRIDEiP0ACG1

Expressioni

Inductioni

Expressed at low levels at 37 degrees Celsius, barely detectable at 26 degrees Celsius; expression is repressed by hns and partially activated by lrp (PubMed:8890170).1 Publication

Interactioni

Subunit structurei

When overexpressed forms homodimers, can interact with the N-terminus (residues 1-64) of H-NS (PubMed:8755860). May interact with Hha and/or Cnu.Curated1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
hnsP0ACF84EBI-551928,EBI-544934

GO - Molecular functioni

Protein-protein interaction databases

BioGridi4262261, 8 interactors
DIPiDIP-35951N
IntActiP0ACG1, 24 interactors
STRINGi316385.ECDH10B_2836

Structurei

Secondary structure

1134
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi117 – 124Combined sources8
Helixi129 – 131Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2LRXNMR-A90-134[»]
ProteinModelPortaliP0ACG1
SMRiP0ACG1
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi42 – 45Poly-Glu4

Domaini

Both the N-terminus (residues 1-76) and the C-terminus (residues 90-134) have RNA chaperone activity for splicing of td, a bacteriophage T4 pre-mRNA (PubMed:17267410).1 Publication

Sequence similaritiesi

Belongs to the histone-like protein H-NS family.Curated

Phylogenomic databases

eggNOGiENOG4108X73 Bacteria
COG2916 LUCA
HOGENOMiHOG000218473
KOiK11685
OMAiNTWLELM

Family and domain databases

Gene3Di1.10.287.1050, 1 hit
4.10.430.10, 1 hit
InterProiView protein in InterPro
IPR027444 H-NS_C_dom
IPR037150 H-NS_C_dom_sf
IPR001801 Histone_HNS
IPR027454 Histone_HNS_N
PfamiView protein in Pfam
PF00816 Histone_HNS, 1 hit
PIRSFiPIRSF002096 HnS, 1 hit
SMARTiView protein in SMART
SM00528 HNS, 1 hit

Sequencei

Sequence statusi: Complete.

P0ACG1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSVMLQSLNN IRTLRAMARE FSIDVLEEML EKFRVVTKER REEEEQQQRE
60 70 80 90 100
LAERQEKIST WLELMKADGI NPEELLGNSS AAAPRAGKKR QPRPAKYKFT
110 120 130
DVNGETKTWT GQGRTPKPIA QALAEGKSLD DFLI
Length:134
Mass (Da):15,348
Last modified:November 22, 2005 - v1
Checksum:i5870BD95F144CE6A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X69210 Genomic DNA Translation: CAA49146.1
U07823 Genomic DNA Translation: AAA64940.1
U00096 Genomic DNA Translation: AAC75716.1
AP009048 Genomic DNA Translation: BAA16535.1
PIRiJH0774
RefSeqiNP_417155.1, NC_000913.3
WP_000115383.1, NZ_LN832404.1

Genome annotation databases

EnsemblBacteriaiAAC75716; AAC75716; b2669
BAA16535; BAA16535; BAA16535
GeneIDi947130
KEGGiecj:JW2644
eco:b2669
PATRICifig|1411691.4.peg.4072

Similar proteinsi

Entry informationi

Entry nameiSTPA_ECOLI
AccessioniPrimary (citable) accession number: P0ACG1
Secondary accession number(s): P30017
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 22, 2005
Last sequence update: November 22, 2005
Last modified: March 28, 2018
This is version 98 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  3. SIMILARITY comments
    Index of protein domains and families

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