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B1ZMD5 (DEF_OPITP) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 37. 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:Oter_0097
OrganismOpitutus terrae (strain DSM 11246 / PB90-1) [Complete proteome] [HAMAP]
Taxonomic identifier452637 [NCBI]
Taxonomic lineageBacteriaVerrucomicrobiaOpitutaeOpitutalesOpitutaceaeOpitutus

Protein attributes

Sequence length192 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 – 192192Peptide deformylase HAMAP-Rule MF_00163
PRO_1000097328

Sites

Active site1511 By similarity
Metal binding1081Iron By similarity
Metal binding1501Iron By similarity
Metal binding1541Iron By similarity

Sequences

Sequence LengthMass (Da)Tools
B1ZMD5 [UniParc].

Last modified May 20, 2008. Version 1.
Checksum: 49327B8C522408E3

FASTA19221,428
        10         20         30         40         50         60 
MSLRIVHYND PVLRRKGEKI TAFDKALSQL AKEMLATMQE AAGIGLAAQQ IGRPVQLCVV 

        70         80         90        100        110        120 
DLRRAEIDFT WELDGAKPPL DLIMPMIITN PEITPDRETD VYLVEEGCLS FPKIRGDVPR 

       130        140        150        160        170        180 
PDAITVRYQD EHGTPHTLHC DGLLARCIQH EVDHLNGVLF IDRMEKKTRA AIDADVKTLA 

       190 
KITRAAAKLN PA 

« Hide

References

[1]"Complete sequence of Opitutus terrae PB90-1."
US DOE Joint Genome Institute
Copeland A., Lucas S., Lapidus A., Glavina del Rio T., Pitluck S., Goltsman E., Clum A., Sun H., Schmutz J., Larimer F., Land M., Hauser L., Kyrpides N., Mikhailova N., Smidt H., Richardson P.
Submitted (APR-2008) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: DSM 11246 / PB90-1.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
CP001032 Genomic DNA. Translation: ACB73388.1.
RefSeqYP_001816988.1. NC_010571.1.

3D structure databases

ProteinModelPortalB1ZMD5.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING452637.Oter_0097.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaACB73388; ACB73388; Oter_0097.
GeneID6206788.
KEGGote:Oter_0097.
PATRIC22811555. VBIOpiTer17422_0099.

Organism-specific databases

CMRSearch...

Phylogenomic databases

eggNOGCOG0242.
HOGENOMHOG000243509.
KOK01462.
OMALETMYQA.
OrthoDBEOG664CMF.
ProtClustDBCLSK2800240.

Enzyme and pathway databases

BioCycOTER452637:GHBR-99-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_OPITP
AccessionPrimary (citable) accession number: B1ZMD5
Entry history
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: May 20, 2008
Last modified: February 19, 2014
This is version 37 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