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B5YIL7

- DEF_THEYD

UniProt

B5YIL7 - DEF_THEYD

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Protein

Peptide deformylase

Gene

def

Organism
Thermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87)
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 bindingi93 – 931IronUniRule annotation
Metal bindingi135 – 1351IronUniRule annotation
Active sitei136 – 1361UniRule annotation
Metal bindingi139 – 1391IronUniRule 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

BioCyciTYEL289376:GH9L-329-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:THEYE_A0329
OrganismiThermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87)
Taxonomic identifieri289376 [NCBI]
Taxonomic lineageiBacteriaNitrospiraeNitrospiralesNitrospiraceaeThermodesulfovibrio
ProteomesiUP000000718: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 165165Peptide deformylasePRO_1000097356Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi289376.THEYE_A0329.

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
InParanoidiB5YIL7.
KOiK01462.
OMAiDMYDTMD.
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.

B5YIL7-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MAILEIKKYP DEVLKKKAET ISEINGDLQK LIDNMIETMY NANGIGLAAP
60 70 80 90 100
QVGVLKRLIV VDTSPREQNQ SLIVLINPEI TDSEGEILSE EGCLSLPGFT
110 120 130 140 150
TRLKRKERVI VKGLDRNGKE IEIEATGLLA RALQHEIDHL DGILLIDKIS
160
PLKRELFRKK FKTKK
Length:165
Mass (Da):18,570
Last modified:November 25, 2008 - v1
Checksum:i396EA10220E4A59B
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001147 Genomic DNA. Translation: ACI20745.1.
RefSeqiWP_012545479.1. NC_011296.1.
YP_002248176.1. NC_011296.1.

Genome annotation databases

EnsemblBacteriaiACI20745; ACI20745; THEYE_A0329.
GeneIDi6943012.
KEGGitye:THEYE_A0329.
PATRICi23907675. VBITheYel104483_0322.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP001147 Genomic DNA. Translation: ACI20745.1 .
RefSeqi WP_012545479.1. NC_011296.1.
YP_002248176.1. NC_011296.1.

3D structure databases

ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 289376.THEYE_A0329.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ACI20745 ; ACI20745 ; THEYE_A0329 .
GeneIDi 6943012.
KEGGi tye:THEYE_A0329.
PATRICi 23907675. VBITheYel104483_0322.

Phylogenomic databases

eggNOGi COG0242.
HOGENOMi HOG000243509.
InParanoidi B5YIL7.
KOi K01462.
OMAi DMYDTMD.
OrthoDBi EOG664CMF.

Enzyme and pathway databases

BioCyci TYEL289376:GH9L-329-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 complete genome sequence of Thermodesulfovibrio yellowstonii strain ATCC 51303 / DSM 11347 / YP87."
    Dodson R.J., Durkin A.S., Wu M., Eisen J., Sutton G.
    Submitted (AUG-2008) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 51303 / DSM 11347 / YP87.

Entry informationi

Entry nameiDEF_THEYD
AccessioniPrimary (citable) accession number: B5YIL7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 24, 2009
Last sequence update: November 25, 2008
Last modified: October 29, 2014
This is version 41 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