Skip Header

Contribute Send feedback
Read comments (?) or add your own

Q38WP3 (DEF_LACSS) Reviewed, UniProtKB/Swiss-Prot

Last modified May 29, 2013. Version 51. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | 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
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Peptide deformylase
Short name=PDF
EC=3.5.1.88
Alternative name(s):
Polypeptide deformylase
Gene names
Name:def
Ordered Locus Names:LCA_1087
OrganismLactobacillus sakei subsp. sakei (strain 23K) [Complete proteome] [HAMAP]
Taxonomic identifier314315 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Bacilli › Lactobacillales › Lactobacillaceae › Lactobacillus ›

Protein attributes

Sequence length185 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

Removes the formyl group from the N-terminal Met of newly synthesized proteins. Requires at least a dipeptide for an efficient rate of reaction. N-terminal L-methionine is a prerequisite for activity but the enzyme has broad specificity at other positions By similarity. HAMAP-Rule MF_00163

Catalytic activity

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide. HAMAP-Rule MF_00163

Cofactor

Binds 1 Fe2+ ion By similarity. HAMAP-Rule MF_00163

Sequence similarities

Belongs to the polypeptide deformylase family.

Ontologies

Keywords
   Biological processProtein biosynthesis
   LigandIron
Metal-binding
   Molecular functionHydrolase
   Technical termComplete proteome
Gene Ontology (GO)
   Biological_processtranslation

Inferred from electronic annotation. Source: HAMAP

   Molecular_functioniron ion binding

Inferred from electronic annotation. Source: InterPro

peptide deformylase activity

Inferred from electronic annotation. Source: HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 185185Peptide deformylase HAMAP-Rule MF_00163
PRO_0000301048

Sites

Active site1561 By similarity
Metal binding1121Iron By similarity
Metal binding1551Iron By similarity
Metal binding1591Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
Q38WP3 [UniParc].

Last modified November 22, 2005. Version 1.
Checksum: 026C90177E5CE2C5

FASTA18520,530
        10         20         30         40         50         60 
MILMKDIIRE GNPTLREIAQ PVSFPLSDED RQLAADMMTF LENSQDPEIA AKYQLRAGVG 

        70         80         90        100        110        120 
LAAPQVDVSK QMSAVLVPGP EGEAPILKDV IINPKIISHS VQDAALAEGE GCLSVDREVP 

       130        140        150        160        170        180 
GYVPRHDRIT LRYQDVEGVS HKIRLKNYPA IVCQHEIDHL NGILFFDHIN KENPFAAPDD 


MIILE

« Hide

References

[1]"The complete genome sequence of the meat-borne lactic acid bacterium Lactobacillus sakei 23K."
Chaillou S., Champomier-Verges M.-C., Cornet M., Crutz-Le Coq A.-M., Dudez A.-M., Martin V., Beaufils S., Darbon-Rongere E., Bossy R., Loux V., Zagorec M.
Nat. Biotechnol. 23:1527-1533(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: 23K.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CR936503 Genomic DNA. Translation: CAI55388.1.
RefSeqYP_395697.1. NC_007576.1.

3D structure databases

ProteinModelPortalQ38WP3.
SMRQ38WP3. Positions 1-185.
ModBaseSearch...

Protein-protein interaction databases

STRING314315.LSA1087.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaCAI55388; CAI55388; LCA_1087.
GeneID3777262.
KEGGlsa:LSA1087.
PATRIC22274980. VBILacSak116432_1056.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
KOK01462.
OMAILMKDIV.
ProtClustDBPRK00150.

Family and domain databases

Gene3D3.90.45.10. 1 hit.
HAMAPMF_00163. Pep_deformylase.
InterProIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERPTHR10458. PTHR10458. 1 hit.
PfamPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFPIRSF004749. Pep_def. 1 hit.
PRINTSPR01576. PDEFORMYLASE.
SUPFAMSSF56420. Fmet_deformylase. 1 hit.
TIGRFAMsTIGR00079. pept_deformyl. 1 hit.
ProtoNetSearch...

Entry information

Entry nameDEF_LACSS
AccessionPrimary (citable) accession number: Q38WP3
Entry history
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: November 22, 2005
Last modified: May 29, 2013
This is version 51 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents