Chromosomal replication initiator protein DnaA - Escherichia coli (strain K12)

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P03004 (DNAA_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 132. 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:
Chromosomal replication initiator protein DnaA

Gene names

Name:	dnaA
Ordered Locus Names:	b3702, JW3679

Organism

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

Taxonomic identifier

83333 [NCBI]

Taxonomic lineage

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

Protein attributes

Sequence length	467 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Plays an important role in the initiation and regulation of chromosomal replication. Binds to the origin of replication; it binds specifically double-stranded DNA at a 9 bp consensus (dnaA box): 5'-TTATC[CA]A[CA]A-3'. DnaA binds to ATP and to acidic phospholipids. DnaA can inhibit its own gene expression as well as that of other genes such as dam, rpoH, ftsA and mioC. Ref.9
Subunit structure	Some 20 DnaA protein molecules bind their sites in oriC. Forms a large complex with ATP-DnaA, ADP-Hda and the DNA-loaded clamp. Interacts with DiaA; this stimulates the association of DnaA with the origin of replication. Ref.9 Ref.10
Subcellular location	Cytoplasm HAMAP-Rule MF_00377.
Sequence similarities	Belongs to the DnaA family.

Ontologies

Keywords
Biological process	DNA replication
Cellular component	Cytoplasm
Ligand	ATP-binding DNA-binding Nucleotide-binding
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA replication Inferred from mutant phenotype PubMed 12068813. Source: EcoliWiki DNA replication initiation Inferred from electronic annotation. Source: HAMAP regulation of DNA replication Inferred from mutant phenotype PubMed 12068813. Source: EcoliWiki
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell plasma membrane part Inferred from direct assay PubMed 10762265. Source: EcoCyc
Molecular_function	ATP binding Inferred from electronic annotation. Source: HAMAP DNA replication origin binding Inferred from mutant phenotype PubMed 19833870. Source: EcoCyc nucleoside-triphosphatase activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
dnaB	P0ACB0	4	EBI-548951,EBI-548978
dps	P0ABT2	2	EBI-548951,EBI-549640
hupA	P0ACF0	3	EBI-548951,EBI-547648

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 467

467

Chromosomal replication initiator protein DnaA HAMAP-Rule MF_00377

PRO_0000114174

Regions

Nucleotide binding

172 – 179

ATP Probable

Experimental info

Sequence conflict

69 – 70

AD → RI Ref.1

Secondary structure

467

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P03004 [UniParc].

Last modified July 1, 1993. Version 2.
Checksum: 607C8366A8CDCCED
Show »

FASTA

467

52,551

        10         20         30         40         50         60 
MSLSLWQQCL ARLQDELPAT EFSMWIRPLQ AELSDNTLAL YAPNRFVLDW VRDKYLNNIN 

        70         80         90        100        110        120 
GLLTSFCGAD APQLRFEVGT KPVTQTPQAA VTSNVAAPAQ VAQTQPQRAA PSTRSGWDNV 

       130        140        150        160        170        180 
PAPAEPTYRS NVNVKHTFDN FVEGKSNQLA RAAARQVADN PGGAYNPLFL YGGTGLGKTH 

       190        200        210        220        230        240 
LLHAVGNGIM ARKPNAKVVY MHSERFVQDM VKALQNNAIE EFKRYYRSVD ALLIDDIQFF 

       250        260        270        280        290        300 
ANKERSQEEF FHTFNALLEG NQQIILTSDR YPKEINGVED RLKSRFGWGL TVAIEPPELE 

       310        320        330        340        350        360 
TRVAILMKKA DENDIRLPGE VAFFIAKRLR SNVRELEGAL NRVIANANFT GRAITIDFVR 

       370        380        390        400        410        420 
EALRDLLALQ EKLVTIDNIQ KTVAEYYKIK VADLLSKRRS RSVARPRQMA MALAKELTNH 

       430        440        450        460 
SLPEIGDAFG GRDHTTVLHA CRKIEQLREE SHDIKEDFSN LIRTLSS

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"The nucleotide sequence of the dnaA gene and the first part of the dnaN gene of Escherichia coli K-12." Hansen E.B., Hansen F.G., von Meyenburg K. Nucleic Acids Res. 10:7373-7385(1982) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: K12.
[2]	"Structural analysis of the dnaA and dnaN genes of Escherichia coli." Ohmori H., Kimura M., Nagata T., Sakakibara Y. Gene 28:159-170(1984) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"DNA sequence and analysis of 136 kilobases of the Escherichia coli genome: organizational symmetry around the origin of replication." Burland V.D., Plunkett G. III, Daniels D.L., Blattner F.R. Genomics 16:551-561(1993) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: K12 / MG1655 / ATCC 47076.
[4]	"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], SEQUENCE REVISION TO 403-407. Strain: K12 / MG1655 / ATCC 47076.
[5]	"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.
[6]	"The nucleotide sequence of the dnaA gene promoter and of the adjacent rpmH gene, coding for the ribosomal protein L34, of Escherichia coli." Hansen F.G., Hansen E.B., Atlung T. EMBO J. 1:1043-1048(1982) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-22.
[7]	"The E. coli dnaA initiation protein: a protein for all seasons." Georgopoulos C. Trends Genet. 5:319-321(1989) [PubMed] [Europe PMC] [Abstract] Cited for: REVIEW.
[8]	"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.
[9]	"The interaction of DiaA and DnaA regulates the replication cycle in E. coli by directly promoting ATP DnaA-specific initiation complexes." Keyamura K., Fujikawa N., Ishida T., Ozaki S., Su'etsugu M., Fujimitsu K., Kagawa W., Yokoyama S., Kurumizaka H., Katayama T. Genes Dev. 21:2083-2099(2007) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH DIAA, FUNCTION.
[10]	"Hda monomerization by ADP binding promotes replicase clamp-mediated DnaA-ATP hydrolysis." Su'etsugu M., Nakamura K., Keyamura K., Kudo Y., Katayama T. J. Biol. Chem. 283:36118-36131(2008) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN A CLAMP-COMPLEX.
[11]	"Structural basis of replication origin recognition by the DnaA protein." Fujikawa N., Kurumizaka H., Nureki O., Terada T., Shirouzu M., Katayama T., Yokoyama S. Nucleic Acids Res. 31:2077-2086(2003) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) OF 374-467.
[12]	"Structure and function of dnaA N-terminal domains: specific sites and mechanisms in inter-DNAA interaction and in dnaB helicase loading on oric." RIKEN structural genomics initiative (RSGI) Submitted (MAY-2007) to the PDB data bank Cited for: STRUCTURE BY NMR OF 2-108.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

J01602 Genomic DNA. Translation: AAB59149.1.
X01861 Genomic DNA. Translation: CAA25980.1.
L10328 Genomic DNA. Translation: AAA62053.1. Sequence problems.
U00096 Genomic DNA. Translation: AAC76725.1.
AP009048 Genomic DNA. Translation: BAE77592.1.

PIR

IQECDA. G65172.

RefSeq

NP_418157.1. NC_000913.2.
YP_491733.1. NC_007779.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1J1V	X-ray	2.10	A	374-467	[»]
2E0G	NMR	-	A	2-108	[»]

ProteinModelPortal

P03004.

SMR

P03004. Positions 2-108, 132-467.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-9455N.

IntAct

P03004. 41 interactions.

MINT

MINT-207293.

STRING

511145.b3702.

Proteomic databases

PaxDb

P03004.

PRIDE

P03004.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblBacteria

AAC76725; AAC76725; b3702.
BAE77592; BAE77592; BAE77592.

GeneID

12932545.
948217.

KEGG

ecj:Y75_p3471.
eco:b3702.

PATRIC

32122901. VBIEscCol129921_3826.

Organism-specific databases

EchoBASE

EB0231.

EcoGene

EG10235. dnaA.

Phylogenomic databases

eggNOG

COG0593.

HOGENOM

HOG000235659.

K02313.

OMA

CHTLNAL.

ProtClustDB

PRK00149.

Enzyme and pathway databases

BioCyc

EcoCyc:PD03831.
ECOL316407:JW3679-MONOMER.

Gene expression databases

Genevestigator

P03004.

Family and domain databases

Gene3D

1.10.1750.10. 1 hit.

HAMAP

MF_00377. DnaA_bact.

InterPro

IPR003593. AAA+_ATPase.
IPR001957. Chromosome_initiator_DnaA.
IPR020591. Chromosome_initiator_DnaA-like.
IPR018312. Chromosome_initiator_DnaA_CS.
IPR013159. DnaA_C.
IPR013317. DnaA_Hda.
IPR024633. DnaA_N_dom.
IPR010921. Trp_repressor/repl_initiator.
[Graphical view]

Pfam

PF00308. Bac_DnaA. 1 hit.
PF08299. Bac_DnaA_C. 1 hit.
PF11638. DnaA_N. 1 hit.
[Graphical view]

PRINTS

PR00051. DNAA.

SMART

SM00382. AAA. 1 hit.
SM00760. Bac_DnaA_C. 1 hit.
[Graphical view]

SUPFAM

SSF48295. Trp_repress_rep. 1 hit.

TIGRFAMs

TIGR00362. DnaA. 1 hit.

PROSITE

PS01008. DNAA. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P03004.

Entry information

Entry name

DNAA_ECOLI

Accession

Primary (citable) accession number: P03004
Secondary accession number(s): P78122, Q2M814

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 21, 1986
Last sequence update:	July 1, 1993
Last modified:	May 1, 2013
This is version 132 of the entry and version 2 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

Regions

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