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Protein

Integration host factor subunit alpha

Gene

ihfA

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

One of the 2 subunits of integration host factor (IHF), a specific DNA-binding protein that functions in genetic recombination as well as in transcriptional and translational control. Binds to hundreds of transcriptionally inactive, AT-rich DNA sites, approximately half its binding sites are in non-coding DNA, which only accounts for about 10% of the genome (PubMed:16963779).1 Publication
Plays a crucial role in the lysogenic life cycle of bacteriophage lambda, as it is required not only in the recombination reaction, which inserts lambda DNA into the E.coli chromosome, but also for the synthesis of int and cI repressor, two phage proteins necessary for DNA insertion and repression, respectively. The synthesis of int and cI proteins is regulated indirectly by IHF via translational control of the lambda cII protein.
Has an essential role in conjugative DNA transfer (CDT), the unidirectional transfer of ssDNA plasmid from a donor to a recipient cell. It is the central mechanism by which antibiotic resistance and virulence factors are propagated in bacterial populations. Part of the relaxosome, which facilitates a site- and strand-specific cut in the origin of transfer by TraI, at the nic site. Relaxosome formation requires binding of IHF and TraY to the oriT region, which then faciliates binding of TraI.

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Conjugation, DNA recombination, Transcription, Transcription regulation, Translation regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

BioCyciEcoCyc:PD00347.
ECOL316407:JW1702-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Integration host factor subunit alpha
Short name:
IHF-alpha
Gene namesi
Name:ihfA
Synonyms:hid, himA
Ordered Locus Names:b1712, JW1702
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG10440. ihfA.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: EcoCyc
  • nucleoid Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi65 – 651P → L: Alters DNA-binding specificity. 1 Publication
Mutagenesisi66 – 661K → S: Alters DNA-binding specificity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methionineiRemoved1 Publication
Chaini2 – 9998Integration host factor subunit alphaPRO_0000105005Add
BLAST

Proteomic databases

EPDiP0A6X7.
PaxDbiP0A6X7.
PRIDEiP0A6X7.

Expressioni

Gene expression databases

CollecTFiEXPREG_00000780.

Interactioni

Subunit structurei

Heterodimer of an alpha and a beta chain. Part of the relaxosome, a complex composed of plasmid-encoded TraI, TraM, TraY and host-encoded IHF bound to the F plasmid origin of transfer (oriT).2 Publications

Protein-protein interaction databases

BioGridi4260284. 173 interactions.
DIPiDIP-36031N.
IntActiP0A6X7. 21 interactions.
STRINGi511145.b1712.

Structurei

Secondary structure

1
99
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi5 – 1612Combined sources
Helixi20 – 3920Combined sources
Beta strandi44 – 463Combined sources
Turni47 – 493Combined sources
Beta strandi50 – 578Combined sources
Beta strandi60 – 634Combined sources
Beta strandi65 – 673Combined sources
Beta strandi70 – 734Combined sources
Beta strandi76 – 838Combined sources
Helixi85 – 928Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IHFX-ray2.20A1-99[»]
1OUZX-ray2.41A1-99[»]
1OWFX-ray1.95A1-99[»]
1OWGX-ray2.10A1-99[»]
2HT0X-ray2.00A1-99[»]
2IIEX-ray2.41A3-94[»]
2IIFX-ray2.72A3-94[»]
ProteinModelPortaliP0A6X7.
SMRiP0A6X7. Positions 2-97.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP0A6X7.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0776. LUCA.
HOGENOMiHOG000043829.
InParanoidiP0A6X7.
KOiK04764.
OMAiFDLRDKK.
PhylomeDBiP0A6X7.

Family and domain databases

CDDicd13835. IHF_A. 1 hit.
Gene3Di4.10.520.10. 1 hit.
HAMAPiMF_00380. IHF_alpha. 1 hit.
InterProiIPR000119. Hist_DNA-bd.
IPR020816. Histone-like_DNA-bd_CS.
IPR010992. IHF-like_DNA-bd_dom.
IPR005684. IHF_alpha.
[Graphical view]
PfamiPF00216. Bac_DNA_binding. 1 hit.
[Graphical view]
PRINTSiPR01727. DNABINDINGHU.
SMARTiSM00411. BHL. 1 hit.
[Graphical view]
SUPFAMiSSF47729. SSF47729. 1 hit.
TIGRFAMsiTIGR00987. himA. 1 hit.
PROSITEiPS00045. HISTONE_LIKE. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P0A6X7-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MALTKAEMSE YLFDKLGLSK RDAKELVELF FEEIRRALEN GEQVKLSGFG
60 70 80 90
NFDLRDKNQR PGRNPKTGED IPITARRVVT FRPGQKLKSR VENASPKDE
Length:99
Mass (Da):11,354
Last modified:April 1, 1988 - v1
Checksum:i278AC82BCD79D754
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K02844 Genomic DNA. Translation: AAA51471.1.
V00291 Genomic DNA. Translation: CAA23566.1.
U00096 Genomic DNA. Translation: AAC74782.1.
AP009048 Genomic DNA. Translation: BAA15480.1.
M14031 Genomic DNA. Translation: AAA23525.1.
PIRiC23099. IQECAA.
RefSeqiNP_416227.1. NC_000913.3.
WP_001229265.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC74782; AAC74782; b1712.
BAA15480; BAA15480; BAA15480.
GeneIDi945472.
KEGGiecj:JW1702.
eco:b1712.
PATRICi32118730. VBIEscCol129921_1783.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
K02844 Genomic DNA. Translation: AAA51471.1.
V00291 Genomic DNA. Translation: CAA23566.1.
U00096 Genomic DNA. Translation: AAC74782.1.
AP009048 Genomic DNA. Translation: BAA15480.1.
M14031 Genomic DNA. Translation: AAA23525.1.
PIRiC23099. IQECAA.
RefSeqiNP_416227.1. NC_000913.3.
WP_001229265.1. NZ_LN832404.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1IHFX-ray2.20A1-99[»]
1OUZX-ray2.41A1-99[»]
1OWFX-ray1.95A1-99[»]
1OWGX-ray2.10A1-99[»]
2HT0X-ray2.00A1-99[»]
2IIEX-ray2.41A3-94[»]
2IIFX-ray2.72A3-94[»]
ProteinModelPortaliP0A6X7.
SMRiP0A6X7. Positions 2-97.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi4260284. 173 interactions.
DIPiDIP-36031N.
IntActiP0A6X7. 21 interactions.
STRINGi511145.b1712.

Proteomic databases

EPDiP0A6X7.
PaxDbiP0A6X7.
PRIDEiP0A6X7.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiAAC74782; AAC74782; b1712.
BAA15480; BAA15480; BAA15480.
GeneIDi945472.
KEGGiecj:JW1702.
eco:b1712.
PATRICi32118730. VBIEscCol129921_1783.

Organism-specific databases

EchoBASEiEB0435.
EcoGeneiEG10440. ihfA.

Phylogenomic databases

eggNOGiCOG0776. LUCA.
HOGENOMiHOG000043829.
InParanoidiP0A6X7.
KOiK04764.
OMAiFDLRDKK.
PhylomeDBiP0A6X7.

Enzyme and pathway databases

BioCyciEcoCyc:PD00347.
ECOL316407:JW1702-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP0A6X7.
PROiP0A6X7.

Gene expression databases

CollecTFiEXPREG_00000780.

Family and domain databases

CDDicd13835. IHF_A. 1 hit.
Gene3Di4.10.520.10. 1 hit.
HAMAPiMF_00380. IHF_alpha. 1 hit.
InterProiIPR000119. Hist_DNA-bd.
IPR020816. Histone-like_DNA-bd_CS.
IPR010992. IHF-like_DNA-bd_dom.
IPR005684. IHF_alpha.
[Graphical view]
PfamiPF00216. Bac_DNA_binding. 1 hit.
[Graphical view]
PRINTSiPR01727. DNABINDINGHU.
SMARTiSM00411. BHL. 1 hit.
[Graphical view]
SUPFAMiSSF47729. SSF47729. 1 hit.
TIGRFAMsiTIGR00987. himA. 1 hit.
PROSITEiPS00045. HISTONE_LIKE. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiIHFA_ECOLI
AccessioniPrimary (citable) accession number: P0A6X7
Secondary accession number(s): P06984
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1988
Last sequence update: April 1, 1988
Last modified: September 7, 2016
This is version 98 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.