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B4S291

- DEF_ALTMD

UniProt

B4S291 - DEF_ALTMD

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Protein

Peptide deformylase

Gene

def

Organism
Alteromonas macleodii (strain DSM 17117 / Deep ecotype)
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 bindingi91 – 911IronUniRule annotation
Metal bindingi133 – 1331IronUniRule annotation
Active sitei134 – 1341UniRule annotation
Metal bindingi137 – 1371IronUniRule 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

BioCyciAMAC314275:GHA7-21-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:MADE_1000105
OrganismiAlteromonas macleodii (strain DSM 17117 / Deep ecotype)
Taxonomic identifieri314275 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesAlteromonadaceaeAlteromonas
ProteomesiUP000001870: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 169169Peptide deformylasePRO_1000097294Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi314275.MADE_00022.

Structurei

3D structure databases

ProteinModelPortaliB4S291.
SMRiB4S291. Positions 1-164.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
KOiK01462.
OMAiPNQYAEV.

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.

B4S291-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAILDVLSFP DERLRTVAKP VEEVNDEIKQ LVSDMFETMK DENGIGLAAT
60 70 80 90 100
QVNRHVQVVV MDVSEDQNEP RVFINPEITR KDGSTISEEG CLSVPGNYAK
110 120 130 140 150
VERAEAITVK ALDQNGEAFE LDAEGLLAIC IQHELDHLKG KLFIDYLSPL
160
KRQRIRKKLE KEARLAAKA
Length:169
Mass (Da):18,958
Last modified:September 23, 2008 - v1
Checksum:iBD8480690C7AB1C9
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001103 Genomic DNA. Translation: AEA96170.1.
RefSeqiYP_004425168.1. NC_011138.3.

Genome annotation databases

EnsemblBacteriaiAEA96170; AEA96170; MADE_1000105.
GeneIDi6775476.
KEGGiamc:MADE_1000105.
PATRICi20871297. VBIAltMac49397_0023.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001103 Genomic DNA. Translation: AEA96170.1 .
RefSeqi YP_004425168.1. NC_011138.3.

3D structure databases

ProteinModelPortali B4S291.
SMRi B4S291. Positions 1-164.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 314275.MADE_00022.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AEA96170 ; AEA96170 ; MADE_1000105 .
GeneIDi 6775476.
KEGGi amc:MADE_1000105.
PATRICi 20871297. VBIAltMac49397_0023.

Phylogenomic databases

eggNOGi COG0242.
KOi K01462.
OMAi PNQYAEV.

Enzyme and pathway databases

BioCyci AMAC314275:GHA7-21-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. "Comparative genomics of two ecotypes of the marine planktonic copiotroph Alteromonas macleodii suggests alternative lifestyles associated with different kinds of particulate organic matter."
    Ivars-Martinez E., Martin-Cuadrado A.-B., D'Auria G., Mira A., Ferriera S., Johnson J., Friedman R., Rodriguez-Valera F.
    ISME J. 2:1194-1212(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 17117 / Deep ecotype.

Entry informationi

Entry nameiDEF_ALTMD
AccessioniPrimary (citable) accession number: B4S291
Secondary accession number(s): F2G1S3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: September 23, 2008
Last modified: October 1, 2014
This is version 43 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