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B2S3Z6 (DEF_TREPS) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 40. 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

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:TPASS_0757
OrganismTreponema pallidum subsp. pallidum (strain SS14) [Complete proteome] [HAMAP]
Taxonomic identifier455434 [NCBI]
Taxonomic lineageBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema

Protein attributes

Sequence length162 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: UniProtKB-HAMAP

   Molecular_functioniron ion binding

Inferred from electronic annotation. Source: InterPro

peptide deformylase activity

Inferred from electronic annotation. Source: UniProtKB-HAMAP

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 162162Peptide deformylase HAMAP-Rule MF_00163
PRO_1000097357

Sites

Active site1291 By similarity
Metal binding861Iron By similarity
Metal binding1281Iron By similarity
Metal binding1321Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
B2S3Z6 [UniParc].

Last modified July 1, 2008. Version 1.
Checksum: 15AEA6C940819CC1

FASTA16218,323
        10         20         30         40         50         60 
MELKFLGEPC LTTVSEPVSE VDEQLRAFIS GMFRVMRGAG GVGLAAPQVG RTVRVFVVDV 

        70         80         90        100        110        120 
EHHVRAFINP QITAASEEQS SYEEGCLSIP HIYERVLRPR RVSVQYLDEN GKRCAVDADG 

       130        140        150        160 
ILARVIQHEY DHLDGILFLD RIDEKRRDDA LRRYAALRGT IR 

« Hide

References

[1]"Complete genome sequence of Treponema pallidum ssp. pallidum strain SS14 determined with oligonucleotide arrays."
Matejkova P., Strouhal M., Smajs D., Norris S.J., Palzkill T., Petrosino J.F., Sodergren E., Norton J.E., Singh J., Richmond T.A., Molla M.N., Albert T.J., Weinstock G.M.
BMC Microbiol. 8:76-76(2008) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: SS14.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP000805 Genomic DNA. Translation: ACD71175.1.
RefSeqYP_001933754.1. NC_010741.1.
YP_008119484.1. NC_021508.1.

3D structure databases

ProteinModelPortalB2S3Z6.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING455434.TPASS_0757.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACD71175; ACD71175; TPASS_0757.
GeneID15843620.
6333575.
KEGGtpp:TPASS_0757.
PATRIC20529299. VBITrePal10923_0800.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
HOGENOMHOG000243509.
KOK01462.
OMAVHQRIIV.
OrthoDBEOG664CMF.
ProtClustDBCLSK218851.

Enzyme and pathway databases

BioCycTPAL455434:GJ9E-797-MONOMER.

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. SSF56420. 1 hit.
TIGRFAMsTIGR00079. pept_deformyl. 1 hit.
ProtoNetSearch...

Entry information

Entry nameDEF_TREPS
AccessionPrimary (citable) accession number: B2S3Z6
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: July 1, 2008
Last modified: February 19, 2014
This is version 40 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