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Q7MGK6

- DEF2_VIBVY

UniProt

Q7MGK6 - DEF2_VIBVY

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Protein

Peptide deformylase 2

Gene

def2

Organism
Vibrio vulnificus (strain YJ016)
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

Fe2+UniRule annotationNote: Binds 1 Fe(2+) ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi123 – 1231IronUniRule annotation
Metal bindingi165 – 1651IronUniRule annotation
Active sitei166 – 1661UniRule annotation
Metal bindingi169 – 1691IronUniRule 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

BioCyciVVUL196600:GJ9W-3350-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase 2UniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDF 2UniRule annotation
Alternative name(s):
Polypeptide deformylase 2UniRule annotation
Gene namesi
Name:def2UniRule annotation
Ordered Locus Names:VV3225
OrganismiVibrio vulnificus (strain YJ016)
Taxonomic identifieri196600 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000002675: Chromosome I

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 202202Peptide deformylase 2PRO_0000082880Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi196600.VV3225.

Structurei

3D structure databases

ProteinModelPortaliQ7MGK6.
SMRiQ7MGK6. Positions 34-200.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiELLAICI.
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.

Q7MGK6-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MLLGCCHLGY KMSRIEPTRF VLFRHSSTFR VHMSVLQVLT FPDDRLRTVA
60 70 80 90 100
KPVEKVTPEI QKIVDDMIET MYDEEGIGLA ATQVDIHQRI VVIDISESRN
110 120 130 140 150
EPMVLINPEI LEKRGEDGIE EGCLSVPGAR ALVPRAAEVT VKALDRDGHE
160 170 180 190 200
FTLEADDLLA ICIQHELDHL QGKLFVDYLS PLKRKRIQDK LAKIKRFNEK

QR
Length:202
Mass (Da):23,099
Last modified:December 15, 2003 - v1
Checksum:i95DF963B38BF060A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC95989.1.
RefSeqiNP_936018.1. NC_005139.1.
WP_011151422.1. NC_005139.1.

Genome annotation databases

EnsemblBacteriaiBAC95989; BAC95989; BAC95989.
GeneIDi2626101.
KEGGivvy:VV3225.
PATRICi20173351. VBIVibVul40472_3191.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000037 Genomic DNA. Translation: BAC95989.1 .
RefSeqi NP_936018.1. NC_005139.1.
WP_011151422.1. NC_005139.1.

3D structure databases

ProteinModelPortali Q7MGK6.
SMRi Q7MGK6. Positions 34-200.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 196600.VV3225.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAC95989 ; BAC95989 ; BAC95989 .
GeneIDi 2626101.
KEGGi vvy:VV3225.
PATRICi 20173351. VBIVibVul40472_3191.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci VVUL196600:GJ9W-3350-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: YJ016.

Entry informationi

Entry nameiDEF2_VIBVY
AccessioniPrimary (citable) accession number: Q7MGK6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: December 15, 2003
Last modified: November 26, 2014
This is version 69 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