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Q0AXL3

- DEF_SYNWW

UniProt

Q0AXL3 - DEF_SYNWW

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Protein

Peptide deformylase

Gene

def

Organism
Syntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
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 bindingi88 – 881IronUniRule annotation
Metal bindingi130 – 1301IronUniRule annotation
Active sitei131 – 1311UniRule annotation
Metal bindingi134 – 1341IronUniRule 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

BioCyciSWOL335541:GHL1-1267-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:Swol_1232
OrganismiSyntrophomonas wolfei subsp. wolfei (strain DSM 2245B / Goettingen)
Taxonomic identifieri335541 [NCBI]
Taxonomic lineageiBacteriaFirmicutesClostridiaClostridialesSyntrophomonadaceaeSyntrophomonas
ProteomesiUP000001968: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 152152Peptide deformylasePRO_0000301119Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi335541.Swol_1232.

Structurei

3D structure databases

ProteinModelPortaliQ0AXL3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiAIAVQHE.
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.

Q0AXL3-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MSVYQVITVP NDILRGKALP VKEINAGVLR VLDNMRDTMY AADGVGLAAP
60 70 80 90 100
QIGIPKRMIV VDIGENLLEL INPEILKQEG NQLGSEGCLS VPGIVGRVNR
110 120 130 140 150
AKKVLVKGLD RNGQELNFAA VDLLAKVLQH EIDHLEGILF IDKAIETRIE

KL
Length:152
Mass (Da):16,598
Last modified:October 17, 2006 - v1
Checksum:i63FCCE6AC05415C4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000448 Genomic DNA. Translation: ABI68541.1.
RefSeqiWP_011640644.1. NC_008346.1.
YP_753912.1. NC_008346.1.

Genome annotation databases

EnsemblBacteriaiABI68541; ABI68541; Swol_1232.
GeneIDi4282147.
KEGGiswo:Swol_1232.
PATRICi23857307. VBISynWol51738_1311.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP000448 Genomic DNA. Translation: ABI68541.1 .
RefSeqi WP_011640644.1. NC_008346.1.
YP_753912.1. NC_008346.1.

3D structure databases

ProteinModelPortali Q0AXL3.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 335541.Swol_1232.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABI68541 ; ABI68541 ; Swol_1232 .
GeneIDi 4282147.
KEGGi swo:Swol_1232.
PATRICi 23857307. VBISynWol51738_1311.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci SWOL335541:GHL1-1267-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 of Syntrophomonas wolfei: new insights into syntrophic metabolism and biohydrogen production."
    Sieber J.R., Sims D.R., Han C., Kim E., Lykidis A., Lapidus A.L., McDonnald E., Rohlin L., Culley D.E., Gunsalus R., McInerney M.J.
    Environ. Microbiol. 12:2289-2301(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 2245B / Goettingen.

Entry informationi

Entry nameiDEF_SYNWW
AccessioniPrimary (citable) accession number: Q0AXL3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: October 17, 2006
Last modified: November 26, 2014
This is version 55 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