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A0M3P3

- DEF_GRAFK

UniProt

A0M3P3 - DEF_GRAFK

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Protein

Peptide deformylase

Gene

def

Organism
Gramella forsetii (strain KT0803)
Status
Reviewed - Annotation score: 2 out of 5- Protein inferred from homologyi

Functioni

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.UniRule annotation

Catalytic activityi

Formyl-L-methionyl peptide + H2O = formate + methionyl peptide.UniRule annotation

Cofactori

Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi105 – 1051IronUniRule annotation
Metal bindingi147 – 1471IronUniRule annotation
Active sitei148 – 1481UniRule annotation
Metal bindingi151 – 1511IronUniRule annotation

GO - Molecular functioni

  1. iron ion binding Source: InterPro
  2. peptide deformylase activity Source: UniProtKB-HAMAP

GO - Biological processi

  1. translation Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Hydrolase

Keywords - Biological processi

Protein biosynthesis

Keywords - Ligandi

Iron, Metal-binding

Enzyme and pathway databases

BioCyciGFOR411154:GI79-2273-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylaseUniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDFUniRule annotation
Alternative name(s):
Polypeptide deformylaseUniRule annotation
Gene namesi
Name:defUniRule annotation
Ordered Locus Names:GFO_2273
OrganismiGramella forsetii (strain KT0803)
Taxonomic identifieri411154 [NCBI]
Taxonomic lineageiBacteriaBacteroidetesFlavobacteriiaFlavobacterialesFlavobacteriaceaeGramella
ProteomesiUP000000755: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 196196Peptide deformylasePRO_0000301034Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi411154.GFO_2273.

Structurei

3D structure databases

ProteinModelPortaliA0M3P3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiEETGEEW.
OrthoDBiEOG664CMF.

Family and domain databases

Gene3Di3.90.45.10. 1 hit.
HAMAPiMF_00163. Pep_deformylase.
InterProiIPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view]
PANTHERiPTHR10458. PTHR10458. 1 hit.
PfamiPF01327. Pep_deformylase. 1 hit.
[Graphical view]
PIRSFiPIRSF004749. Pep_def. 1 hit.
PRINTSiPR01576. PDEFORMYLASE.
SUPFAMiSSF56420. SSF56420. 1 hit.
TIGRFAMsiTIGR00079. pept_deformyl. 1 hit.

Sequencei

Sequence statusi: Complete.

A0M3P3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MILPIIAYGD PVLKKKAKDI DKDYPKLEEL INNMWDTMYN AYGVGLAAPQ
60 70 80 90 100
VGLPVRMFMI DPAPFADDEE LDEAEKKVLM DLRKVFINPQ IIEETGEEWA
110 120 130 140 150
FSEGCLSIPE VREDVFRQPD ITIEYHDENW EKHTETYSGL AARVIQHEYD
160 170 180 190
HIEGILFTDK LSSLKKRLIK SKLANISKGK INVEYKMRFP NAKKAR
Length:196
Mass (Da):22,661
Last modified:December 12, 2006 - v1
Checksum:i5AAA5D95DD260175
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CU207366 Genomic DNA. Translation: CAL67238.1.
RefSeqiYP_862305.1. NC_008571.1.

Genome annotation databases

EnsemblBacteriaiCAL67238; CAL67238; GFO_2273.
GeneIDi4650529.
KEGGigfo:GFO_2273.
PATRICi22073319. VBIGraFor5527_2197.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CU207366 Genomic DNA. Translation: CAL67238.1 .
RefSeqi YP_862305.1. NC_008571.1.

3D structure databases

ProteinModelPortali A0M3P3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 411154.GFO_2273.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai CAL67238 ; CAL67238 ; GFO_2273 .
GeneIDi 4650529.
KEGGi gfo:GFO_2273.
PATRICi 22073319. VBIGraFor5527_2197.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243509.
KOi K01462.
OMAi EETGEEW.
OrthoDBi EOG664CMF.

Enzyme and pathway databases

BioCyci GFOR411154:GI79-2273-MONOMER.

Family and domain databases

Gene3Di 3.90.45.10. 1 hit.
HAMAPi MF_00163. Pep_deformylase.
InterProi IPR000181. Fmet_deformylase.
IPR023635. Peptide_deformylase.
[Graphical view ]
PANTHERi PTHR10458. PTHR10458. 1 hit.
Pfami PF01327. Pep_deformylase. 1 hit.
[Graphical view ]
PIRSFi PIRSF004749. Pep_def. 1 hit.
PRINTSi PR01576. PDEFORMYLASE.
SUPFAMi SSF56420. SSF56420. 1 hit.
TIGRFAMsi TIGR00079. pept_deformyl. 1 hit.
ProtoNeti Search...

Publicationsi

  1. "Whole genome analysis of the marine Bacteroidetes'Gramella forsetii' reveals adaptations to degradation of polymeric organic matter."
    Bauer M., Kube M., Teeling H., Richter M., Lombardot T., Allers E., Wuerdemann C.A., Quast C., Kuhl H., Knaust F., Woebken D., Bischof K., Mussmann M., Choudhuri J.V., Meyer F., Reinhardt R., Amann R.I., Gloeckner F.O.
    Environ. Microbiol. 8:2201-2213(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: KT0803.

Entry informationi

Entry nameiDEF_GRAFK
AccessioniPrimary (citable) accession number: A0M3P3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: December 12, 2006
Last modified: October 29, 2014
This is version 54 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3