DNA-binding protein HU-alpha - Escherichia coli (strain K12)

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P0ACF0 (DBHA_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 76. History...

Clusters with 100%, 90%, 50% identity |

Documents (3) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
DNA-binding protein HU-alpha

Alternative name(s):
HU-2
NS2

Gene names

Name:	hupA
Ordered Locus Names:	b4000, JW3964

Organism

Escherichia coli (strain K12) [Reference proteome] [HAMAP]

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia ›

Protein attributes

Sequence length	90 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Histone-like DNA-binding protein which is capable of wrapping DNA to stabilize it, and thus to prevent its denaturation under extreme environmental conditions.
Subunit structure	Heterodimer of an alpha and a beta chain. Ref.12
Sequence similarities	Belongs to the bacterial histone-like protein family.

Ontologies

Keywords
Biological process	DNA condensation
Ligand	DNA-binding
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	chromosome condensation Inferred from electronic annotation. Source: UniProtKB-KW response to DNA damage stimulus Inferred from expression pattern PubMed 11967071. Source: EcoliWiki transcription, DNA-dependent Inferred from direct assay Ref.12 PubMed 3514923 PubMed 9218807. Source: EcoCyc
Cellular_component	membrane Inferred from direct assay PubMed 16858726. Source: UniProtKB
Molecular_function	DNA binding Inferred from direct assay PubMed 10551881. Source: EcoliWiki
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
dnaA	P03004	3	EBI-547648,EBI-548951
hupB	P0ACF4	2	EBI-547648,EBI-370411

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 90

DNA-binding protein HU-alpha

PRO_0000104935

Experimental info

Sequence conflict

19 – 32

TQAKA…TLAAI → AAAGRALDAIIASV AA sequence Ref.7

Secondary structure

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P0ACF0 [UniParc].

Last modified July 21, 1986. Version 1.
Checksum: 6B5B8536FDBD13DC
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FASTA

9,535

        10         20         30         40         50         60 
MNKTQLIDVI AEKAELSKTQ AKAALESTLA AITESLKEGD AVQLVGFGTF KVNHRAERTG 

        70         80         90 
RNPQTGKEIK IAAANVPAFV SGKALKDAVK

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Cloning and sequencing of the HU-2 gene of Escherichia coli." Kano Y., Osato K., Wada M., Imamoto F. Mol. Gen. Genet. 209:408-410(1987) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12.
[2]	"Analysis of the Escherichia coli genome. IV. DNA sequence of the region from 89.2 to 92.8 minutes." Blattner F.R., Burland V.D., Plunkett G. III, Sofia H.J., Daniels D.L. Nucleic Acids Res. 21:5408-5417(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[3]	"The complete genome sequence of Escherichia coli K-12." Blattner F.R., Plunkett G. III, Bloch C.A., Perna N.T., Burland V., Riley M., Collado-Vides J., Glasner J.D., Rode C.K., Mayhew G.F., Gregor J., Davis N.W., Kirkpatrick H.A., Goeden M.A., Rose D.J., Mau B., Shao Y. Science 277:1453-1474(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[4]	"Highly accurate genome sequences of Escherichia coli K-12 strains MG1655 and W3110." Hayashi K., Morooka N., Yamamoto Y., Fujita K., Isono K., Choi S., Ohtsubo E., Baba T., Wanner B.L., Mori H., Horiuchi T. Mol. Syst. Biol. 2:E1-E5(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[5]	"Primary structures of two homologous ribosome-associated DNA-binding proteins of Escherichia coli." Mende L., Timm B., Subramanian A.R. FEBS Lett. 96:395-398(1978) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE.
[6]	"Complete amino-acid sequences of DNA-binding proteins HU-1 and HU-2 from Escherichia coli." Laine B., Kmiecik D., Sautiere P., Biserte G., Cohen-Solal M. Eur. J. Biochem. 103:447-461(1980) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE.
[7]	"The amino- and carboxy-terminal amino acid sequences of protein HU from Escherichia coli." Laine B., Sautiere P., Biserte G., Cohen-Solal M., Gros F., Rouviere-Yaniv J. FEBS Lett. 89:116-120(1978) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 1-37.
[8]	"Promoters and autogenous control of the Escherichia coli hupA and hupB genes." Kohno K., Wada M., Kano Y., Imamoto F. J. Mol. Biol. 213:27-36(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-28. Strain: K12.
[9]	Nishimura K., Inokuchi H. Submitted (JUL-1992) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-35.
[10]	"Comparing the predicted and observed properties of proteins encoded in the genome of Escherichia coli K-12." Link A.J., Robison K., Church G.M. Electrophoresis 18:1259-1313(1997) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 1-12. Strain: K12 / EMG2.
[11]	"Small genes/gene-products in Escherichia coli K-12." Wasinger V.C., Humphery-Smith I. FEMS Microbiol. Lett. 169:375-382(1998) [PubMed] [Europe PMC] [Abstract] Cited for: PROTEIN SEQUENCE OF 1-10. Strain: K12.
[12]	"Native Escherichia coli HU protein is a heterotypic dimer." Rouviere-Yaniv J., Kjeldgaard N.O. FEBS Lett. 106:297-300(1979) [PubMed] [Europe PMC] [Abstract] Cited for: SUBUNIT. Strain: K12 / W3350 / ATCC 27020.
[13]	"Escherichia coli proteome analysis using the gene-protein database." VanBogelen R.A., Abshire K.Z., Moldover B., Olson E.R., Neidhardt F.C. Electrophoresis 18:1243-1251(1997) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION BY 2D-GEL.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X05994 Genomic DNA. Translation: CAA29412.1.
U00006 Genomic DNA. Translation: AAC43098.1.
U00096 Genomic DNA. Translation: AAC76974.1.
AP009048 Genomic DNA. Translation: BAE77319.1.
X54555 Genomic DNA. Translation: CAA38426.1.
D12624 Genomic DNA. Translation: BAA02149.1.

PIR

DNECS2. S06269.

RefSeq

NP_418428.1. NC_000913.2.
YP_491460.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1MUL	X-ray	2.30	A	1-90	[»]
2O97	X-ray	2.45	A	1-90	[»]

ProteinModelPortal

P0ACF0.

SMR

P0ACF0. Positions 1-90.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-35892N.

IntAct

P0ACF0. 66 interactions.

MINT

MINT-1244407.

STRING

511145.b4000.

Proteomic databases

PaxDb

P0ACF0.

PRIDE

P0ACF0.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC76974; AAC76974; b4000.
BAE77319; BAE77319; BAE77319.

GeneID

12934465.
948499.

KEGG

ecj:Y75_p3196.
eco:b4000.

PATRIC

32123523. VBIEscCol129921_4114.

Organism-specific databases

EchoBASE

EB0461.

EcoGene

EG10466. hupA.

Phylogenomic databases

eggNOG

COG0776.

HOGENOM

HOG000043828.

K05787.

OMA

NHRAART.

ProtClustDB

PRK10753.

Enzyme and pathway databases

BioCyc

EcoCyc:EG10466-MONOMER.
ECOL316407:JW3964-MONOMER.

Gene expression databases

Genevestigator

P0ACF0.

Family and domain databases

Gene3D

4.10.520.10. 1 hit.

InterPro

IPR023630. DNA-bd_HU/IHF.
IPR000119. Hist_DNA-bd_bac.
IPR020816. Histone-like_DNA-bd_CS.
IPR010992. IHF-like_DNA-bd_dom.
[Graphical view]

Pfam

PF00216. Bac_DNA_binding. 1 hit.
[Graphical view]

PRINTS

PR01727. DNABINDINGHU.

SMART

SM00411. BHL. 1 hit.
[Graphical view]

SUPFAM

SSF47729. IHF_like_DNA_bnd. 1 hit.

PROSITE

PS00045. HISTONE_LIKE. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P0ACF0.

Entry information

Entry name

DBHA_ECOLI

Accession

Primary (citable) accession number: P0ACF0
Secondary accession number(s): P02342, Q2M8T7

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	July 21, 1986
Last modified:	May 1, 2013
This is version 76 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program

Relevant documents

Escherichia coli

Escherichia coli (strain K12): entries and cross-references to EcoGene

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Enzyme and pathway databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents