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P96113 (DEF_THEMA) Reviewed, UniProtKB/Swiss-Prot

Last modified March 19, 2014. Version 101. 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:
Peptide deformylase

Short name=PDF
EC=3.5.1.88
Alternative name(s):
Polypeptide deformylase
Gene names
Name:def
Ordered Locus Names:TM_1661
OrganismThermotoga maritima (strain ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) [Reference proteome] [HAMAP]
Taxonomic identifier243274 [NCBI]
Taxonomic lineageBacteriaThermotogaeThermotogalesThermotogaceaeThermotoga

Protein attributes

Sequence length164 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

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 term3D-structure
Complete proteome
Reference 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 – 164164Peptide deformylase HAMAP-Rule MF_00163
PRO_0000082866

Sites

Active site1301 By similarity
Metal binding871Iron By similarity
Metal binding1291Iron By similarity
Metal binding1331Iron By similarity

Secondary structure

....................... 164
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P96113 [UniParc].

Last modified May 1, 1997. Version 1.
Checksum: 9FE94A206DE50842

FASTA16419,024
        10         20         30         40         50         60 
MYRIRVFGDP VLRKRAKPVT KFDENLKKTI ERMIETMYHY DGVGLAAPQV GISQRFFVMD 

        70         80         90        100        110        120 
VGNGPVAVIN PEILEIDPET EVAEEGCLSF PEIFVEIERS KRIKVKYQNT RGEYVEEELE 

       130        140        150        160 
GYAARVFQHE FDHLNGVLII DRISPAKRLL LRKKLMDIAR TVKR 

« Hide

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
Y10306 Genomic DNA. Translation: CAA71356.1.
AE000512 Genomic DNA. Translation: AAD36728.1.
PIRC72224.
RefSeqNP_229461.1. NC_000853.1.
YP_007978019.1. NC_021214.1.
YP_008991245.1. NC_023151.1.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1LMEX-ray2.20A/B1-164[»]
ProteinModelPortalP96113.
SMRP96113. Positions 1-145.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING243274.TM1661.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAD36728; AAD36728; TM_1661.
GeneID15495272.
18093038.
897909.
KEGGtma:TM1661.
tmm:Tmari_1670.
PATRIC23938296. VBITheMar51294_1680.

Phylogenomic databases

eggNOGCOG0242.
KOK01462.
OMAFSEGCLS.
OrthoDBEOG664CMF.
ProtClustDBPRK14597.

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...

Other

EvolutionaryTraceP96113.

Entry information

Entry nameDEF_THEMA
AccessionPrimary (citable) accession number: P96113
Entry history
Integrated into UniProtKB/Swiss-Prot: July 15, 1998
Last sequence update: May 1, 1997
Last modified: March 19, 2014
This is version 101 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

PDB cross-references

Index of Protein Data Bank (PDB) cross-references