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P04995 (EX1_ECOLI) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 140. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Exodeoxyribonuclease I

Short name=Exonuclease I
EC=3.1.11.1
Alternative name(s):
DNA deoxyribophosphodiesterase
Short name=dRPase
Gene names
Name:sbcB
Synonyms:cpeA, xonA
Ordered Locus Names:b2011, JW1993
OrganismEscherichia coli (strain K12) [Reference proteome] [HAMAP]
Taxonomic identifier83333 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeEscherichia

Protein attributes

Sequence length475 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Also functions as a DNA deoxyribophosphodiesterase that releases deoxyribose-phosphate moieties following the cleavage DNA at an apurinic/apyrimidinic (AP) site by either an AP endonuclease AP lyase. Ref.6

Catalytic activity

Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 475475Exodeoxyribonuclease I
PRO_0000087110

Experimental info

Sequence conflict210 – 2189Missing in AAA19938. Ref.1
Sequence conflict2251Q → H in AAA19938. Ref.1
Sequence conflict3431V → E in AAA19938. Ref.1
Sequence conflict4751V → A in AAA19938. Ref.1

Secondary structure

...................................................................................... 475
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P04995 [UniParc].

Last modified February 1, 1994. Version 2.
Checksum: A6A02AC17922C313

FASTA47554,501
        10         20         30         40         50         60 
MMNDGKQQST FLFHDYETFG THPALDRPAQ FAAIRTDSEF NVIGEPEVFY CKPADDYLPQ 

        70         80         90        100        110        120 
PGAVLITGIT PQEARAKGEN EAAFAARIHS LFTVPKTCIL GYNNVRFDDE VTRNIFYRNF 

       130        140        150        160        170        180 
YDPYAWSWQH DNSRWDLLDV MRACYALRPE GINWPENDDG LPSFRLEHLT KANGIEHSNA 

       190        200        210        220        230        240 
HDAMADVYAT IAMAKLVKTR QPRLFDYLFT HRNKHKLMAL IDVPQMKPLV HVSGMFGAWR 

       250        260        270        280        290        300 
GNTSWVAPLA WHPENRNAVI MVDLAGDISP LLELDSDTLR ERLYTAKTDL GDNAAVPVKL 

       310        320        330        340        350        360 
VHINKCPVLA QANTLRPEDA DRLGINRQHC LDNLKILREN PQVREKVVAI FAEAEPFTPS 

       370        380        390        400        410        420 
DNVDAQLYNG FFSDADRAAM KIVLETEPRN LPALDITFVD KRIEKLLFNY RARNFPGTLD 

       430        440        450        460        470 
YAEQQRWLEH RRQVFTPEFL QGYADELQML VQQYADDKEK VALLKALWQY AEEIV 

« Hide

References

« Hide 'large scale' references
[1]"Determination of the nucleotide sequence for the exonuclease I structural gene (sbcB) of Escherichia coli K12."
Phillips G.J., Kushner S.R.
J. Biol. Chem. 262:455-459(1987) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 1-12.
Strain: K12.
[2]"Automated multiplex sequencing of the E.coli genome."
Richterich P., Lakey N., Gryan G., Jaehn L., Mintz L., Robison K., Church G.M.
Submitted (OCT-1993) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / BHB2600.
[3]"A 460-kb DNA sequence of the Escherichia coli K-12 genome corresponding to the 40.1-50.0 min region on the linkage map."
Itoh T., Aiba H., Baba T., Fujita K., Hayashi K., Inada T., Isono K., Kasai H., Kimura S., Kitakawa M., Kitagawa M., Makino K., Miki T., Mizobuchi K., Mori H., Mori T., Motomura K., Nakade S. expand/collapse author list , Nakamura Y., Nashimoto H., Nishio Y., Oshima T., Saito N., Sampei G., Seki Y., Sivasundaram S., Tagami H., Takeda J., Takemoto K., Wada C., Yamamoto Y., Horiuchi T.
DNA Res. 3:379-392(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: K12 / W3110 / ATCC 27325 / DSM 5911.
[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 277:1453-1462(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
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]"DNA deoxyribophosphodiesterase of Escherichia coli is associated with exonuclease I."
Sandigursky M., Franklin W.A.
Nucleic Acids Res. 20:4699-4703(1992) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION AS A DRPASE.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
J02641 Unassigned DNA. Translation: AAA19938.1.
U00009 Genomic DNA. Translation: AAA16417.1.
U00096 Genomic DNA. Translation: AAC75072.1.
AP009048 Genomic DNA. Translation: BAA15839.1.
PIRNCECX1. B64966.
RefSeqNP_416515.1. NC_000913.3.
YP_490253.1. NC_007779.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1FXXX-ray2.40A1-475[»]
2QXFX-ray1.50A1-475[»]
3C94X-ray2.70A1-475[»]
3C95X-ray1.70A1-475[»]
3HL8X-ray1.55A1-475[»]
3HP9X-ray1.60A1-475[»]
4HCBX-ray2.00A/B1-475[»]
4HCCX-ray2.96A/B1-475[»]
4JRPX-ray1.95A/B1-475[»]
4JRQX-ray3.00A/B1-475[»]
4JS4X-ray3.10A/B1-475[»]
4JS5X-ray3.50A/B1-475[»]
ProteinModelPortalP04995.
SMRP04995. Positions 8-475.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-10827N.
IntActP04995. 6 interactions.
MINTMINT-1241098.
STRING511145.b2011.

Proteomic databases

PaxDbP04995.
PRIDEP04995.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAC75072; AAC75072; b2011.
BAA15839; BAA15839; BAA15839.
GeneID12931420.
946529.
KEGGecj:Y75_p1973.
eco:b2011.
PATRIC32119357. VBIEscCol129921_2088.

Organism-specific databases

EchoBASEEB0919.
EcoGeneEG10926. sbcB.

Phylogenomic databases

eggNOGCOG2925.
HOGENOMHOG000276591.
KOK01141.
OMANFFDPYA.
OrthoDBEOG6MWN7F.
PhylomeDBP04995.

Enzyme and pathway databases

BioCycEcoCyc:EG10926-MONOMER.
ECOL316407:JW1993-MONOMER.
MetaCyc:EG10926-MONOMER.
BRENDA3.1.11.1. 2026.

Gene expression databases

GenevestigatorP04995.

Family and domain databases

Gene3D3.30.420.10. 1 hit.
InterProIPR023607. Exodeoxyribonuclease_I.
IPR013620. Exonuc_X-T_C.
IPR013520. Exonuclease_RNaseT/DNA_pol3.
IPR012337. RNaseH-like_dom.
[Graphical view]
PfamPF08411. Exonuc_X-T_C. 1 hit.
PF00929. RNase_T. 1 hit.
[Graphical view]
PIRSFPIRSF000977. Exodeoxyribonuclease_I. 1 hit.
SUPFAMSSF53098. SSF53098. 1 hit.
ProtoNetSearch...

Other

EvolutionaryTraceP04995.
PROP04995.

Entry information

Entry nameEX1_ECOLI
AccessionPrimary (citable) accession number: P04995
Entry history
Integrated into UniProtKB/Swiss-Prot: August 13, 1987
Last sequence update: February 1, 1994
Last modified: May 14, 2014
This is version 140 of the entry and version 2 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

Escherichia coli

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