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Q4FVQ4

- DEF_PSYA2

UniProt

Q4FVQ4 - DEF_PSYA2

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Protein
Peptide deformylase
Gene
def, Psyc_0030
Organism
Psychrobacter arcticus (strain DSM 17307 / 273-4)
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 bindingi92 – 921Iron By similarity
Metal bindingi134 – 1341Iron By similarity
Active sitei135 – 1351 By similarity
Metal bindingi138 – 1381Iron By similarity

GO - Molecular functioni

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

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

BioCyciPARC259536:GI3A-30-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:Psyc_0030
OrganismiPsychrobacter arcticus (strain DSM 17307 / 273-4)
Taxonomic identifieri259536 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaPseudomonadalesMoraxellaceaePsychrobacter
ProteomesiUP000000546: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 184184Peptide deformylaseUniRule annotation
PRO_0000301084Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi259536.Psyc_0030.

Structurei

3D structure databases

ProteinModelPortaliQ4FVQ4.
SMRiQ4FVQ4. Positions 1-162.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiTIMYKEG.
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.

Q4FVQ4-1 [UniParc]FASTAAdd to Basket

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MALLPILSYP DPRLRMIATP VKEVTAEIKT LITDMIETMY DAEGIGLAAS    50
QVDHHIQLIV MDLSEDKDSP RVFINPKVTP LVEEKQPYEE GCLSVPDVYD 100
KVERPNKVRI EAIDQNGNAI DEEVEGLLAV CIQHEIDHLN GVIFVDYLSR 150
LKQTRARDKV RKVLKIREKQ GEQVAEKEPQ PANS 184
Length:184
Mass (Da):20,810
Last modified:August 30, 2005 - v1
Checksum:i725739E26DA0433B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000082 Genomic DNA. Translation: AAZ17904.1.
RefSeqiYP_263338.1. NC_007204.1.

Genome annotation databases

EnsemblBacteriaiAAZ17904; AAZ17904; Psyc_0030.
GeneIDi3514766.
KEGGipar:Psyc_0030.
PATRICi23054183. VBIPsyArc98534_0038.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000082 Genomic DNA. Translation: AAZ17904.1 .
RefSeqi YP_263338.1. NC_007204.1.

3D structure databases

ProteinModelPortali Q4FVQ4.
SMRi Q4FVQ4. Positions 1-162.
ModBasei Search...

Protein-protein interaction databases

STRINGi 259536.Psyc_0030.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAZ17904 ; AAZ17904 ; Psyc_0030 .
GeneIDi 3514766.
KEGGi par:Psyc_0030.
PATRICi 23054183. VBIPsyArc98534_0038.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci PARC259536:GI3A-30-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. "The genome sequence of Psychrobacter arcticus 273-4, a psychroactive Siberian permafrost bacterium, reveals mechanisms for adaptation to low-temperature growth."
    Ayala-del-Rio H.L., Chain P.S., Grzymski J.J., Ponder M.A., Ivanova N., Bergholz P.W., Di Bartolo G., Hauser L., Land M., Bakermans C., Rodrigues D., Klappenbach J., Zarka D., Larimer F., Richardson P., Murray A., Thomashow M., Tiedje J.M.
    Appl. Environ. Microbiol. 76:2304-2312(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 17307 / 273-4.

Entry informationi

Entry nameiDEF_PSYA2
AccessioniPrimary (citable) accession number: Q4FVQ4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: August 30, 2005
Last modified: May 14, 2014
This is version 57 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

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