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A7N121

- DEF_VIBCB

UniProt

A7N121 - DEF_VIBCB

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Protein

Peptide deformylase

Gene
def, VIBHAR_00391
Organism
Vibrio campbellii (strain ATCC BAA-1116 / BB120)
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 By similarity.UniRule annotation

Catalytic activityi

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

Cofactori

Binds 1 Fe2+ ion By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi91 – 911Iron By similarity
Metal bindingi133 – 1331Iron By similarity
Active sitei134 – 1341 By similarity
Metal bindingi137 – 1371Iron By similarity

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

BioCyciVHAR338187:GJCH-384-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase (EC:3.5.1.88)
Short name:
PDF
Alternative name(s):
Polypeptide deformylase
Gene namesi
Name:def
Ordered Locus Names:VIBHAR_00391
OrganismiVibrio campbellii (strain ATCC BAA-1116 / BB120)
Taxonomic identifieri338187 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000008152: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 172172Peptide deformylaseUniRule annotationPRO_1000023138Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi338187.VIBHAR_00391.

Structurei

3D structure databases

ProteinModelPortaliA7N121.
SMRiA7N121. Positions 2-168.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
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.

A7N121-1 [UniParc]FASTAAdd to Basket

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MSVLQVLTFP DDRLRTVAKP VEEVTPEIQK IVDDMIETMY DEEGIGLAAT    50
QVDIHKRIVV IDISETRDEP MVLINPEILE KRGEDGIEEG CLSVPGARAL 100
VPRAAEVTVK ALDRDGKEYT FEADDLLAIC VQHELDHLMG KLFVDYLSPL 150
KRKRIQDKLA KIKRFNEKQQ NA 172
Length:172
Mass (Da):19,496
Last modified:October 2, 2007 - v1
Checksum:i9EBF4AC4001AA919
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000789 Genomic DNA. Translation: ABU69406.1.
RefSeqiYP_001443633.1. NC_009783.1.
YP_008526900.1. NC_022269.1.

Genome annotation databases

EnsemblBacteriaiABU69406; ABU69406; VIBHAR_00391.
GeneIDi16816323.
5553807.
KEGGivca:M892_10785.
vha:VIBHAR_00391.
PATRICi20127663. VBIVibHar24526_0414.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000789 Genomic DNA. Translation: ABU69406.1 .
RefSeqi YP_001443633.1. NC_009783.1.
YP_008526900.1. NC_022269.1.

3D structure databases

ProteinModelPortali A7N121.
SMRi A7N121. Positions 2-168.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 338187.VIBHAR_00391.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABU69406 ; ABU69406 ; VIBHAR_00391 .
GeneIDi 16816323.
5553807.
KEGGi vca:M892_10785.
vha:VIBHAR_00391.
PATRICi 20127663. VBIVibHar24526_0414.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci VHAR338187:GJCH-384-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC BAA-1116 / BB120.

Entry informationi

Entry nameiDEF_VIBCB
AccessioniPrimary (citable) accession number: A7N121
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: October 2, 2007
Last modified: May 14, 2014
This is version 42 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi