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Q0AXL3 (DEF_SYNWW) Reviewed, UniProtKB/Swiss-Prot

Last modified January 25, 2012. Version 38. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
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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:Swol_1232
OrganismSyntrophomonas wolfei subsp. wolfei (strain Goettingen) [Complete proteome] [HAMAP]
Taxonomic identifier335541 [NCBI]
Taxonomic lineageBacteria › Firmicutes › Clostridia › Clostridiales › Syntrophomonadaceae › Syntrophomonas

Protein attributes

Sequence length152 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 MF_00163

Catalytic activity

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

Cofactor

Binds 1 Fe2+ ion By similarity. HAMAP 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: UniProtKB-KW

   Molecular functioniron ion binding

Inferred from electronic annotation. Source: InterPro

peptide deformylase activity

Inferred from electronic annotation. Source: EC

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 152152Peptide deformylase HAMAP MF_00163
PRO_0000301119

Sites

Active site1311 By similarity
Metal binding881Iron By similarity
Metal binding1301Iron By similarity
Metal binding1341Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
Q0AXL3 [UniParc].

Last modified October 17, 2006. Version 1.
Checksum: 63FCCE6AC05415C4

FASTA15216,598
        10         20         30         40         50         60 
MSVYQVITVP NDILRGKALP VKEINAGVLR VLDNMRDTMY AADGVGLAAP QIGIPKRMIV 

        70         80         90        100        110        120 
VDIGENLLEL INPEILKQEG NQLGSEGCLS VPGIVGRVNR AKKVLVKGLD RNGQELNFAA 

       130        140        150 
VDLLAKVLQH EIDHLEGILF IDKAIETRIE KL

« Hide

References

[1]"Complete sequence of Syntrophomonas wolfei subsp. wolfei str. Goettingen."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina del Rio T., Hammon N., Israni S., Dalin E., Tice H., Pitluck S., Brettin T., Sims D., Bruce D., Han C., Tapia R., Gilna P., Schmutz J. expand/collapse author list , Larimer F., Land M., Hauser L., Kyrpides N., Kim E., Boone D.R., Brockman F., Culley D., Ferry J., Gunsalus R., McInerney M.J., Morrison M., Plugge C., Rohlin L., Scholten J., Sieber J., Stams A.J.M., Richardson P.
Submitted (AUG-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Goettingen.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ		CP000448 Genomic DNA. Translation: ABI68541.1.
RefSeqYP_753912.1. NC_008346.1.

3D structure databases

ProteinModelPortalQ0AXL3.
ModBaseSearch...

Protein-protein interaction databases

STRINGQ0AXL3.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

GeneID4282147.
GenomeReviewsGene locus Swol_1232 in contig CP000448_GR.
KEGGswo:Swol_1232.
PATRIC23857307. VBISynWol51738_1311.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
HOGENOMHBG665227.
OMAGRCIQHE.
PhylomeDBQ0AXL3.

Enzyme and pathway databases

BioCycSWOL335541:SWOL_1232-MONOMER.

Family and domain databases

HAMAPMF_00163. Pep_deformylase.
[Tree]
InterProIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
Gene3DG3DSA:3.90.45.10. Fmet_deformylase. 1 hit.
KOK01462.
PANTHERPTHR10458. Fmet_deformylase. 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_SYNWW
AccessionPrimary (citable) accession number: Q0AXL3
Entry history
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 17, 2006
Last modified: January 25, 2012
This is version 38 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

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