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Q3B2U9

- DEF_PELLD

UniProt

Q3B2U9 - DEF_PELLD

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Protein

Peptide deformylase

Gene

def

Organism
Pelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
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 bindingi94 – 941IronUniRule annotation
Metal bindingi136 – 1361IronUniRule annotation
Active sitei137 – 1371UniRule annotation
Metal bindingi140 – 1401IronUniRule 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

BioCyciPLUT319225:GHDM-1483-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:Plut_1473
OrganismiPelodictyon luteolum (strain DSM 273) (Chlorobium luteolum (strain DSM 273))
Taxonomic identifieri319225 [NCBI]
Taxonomic lineageiBacteriaChlorobiChlorobiaChlorobialesChlorobiaceaeChlorobium/Pelodictyon groupPelodictyon
ProteomesiUP000002709: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 190190Peptide deformylasePRO_0000301076Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi319225.Plut_1473.

Structurei

3D structure databases

ProteinModelPortaliQ3B2U9.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
KOiK01462.
OMAiPNQYAEV.
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.

Q3B2U9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MILPINTYSD EVLHQKAKPL KGVDADISSL IDSMFESMEN ASGIGLAAPQ
60 70 80 90 100
VGCSIRLLVL DVSCMKSYED VPPMVVINPN VLAVRGKNLM EEGCLSVPGV
110 120 130 140 150
QGDVLRPSEI TLKYRDRNFQ EHTEEFSGML ARVLQHEIDH LNGTLFVDRM
160 170 180 190
EKRDRRRIQQ ELDDIAAGLV PADYPIAREC SRGGEGPACM
Length:190
Mass (Da):21,026
Last modified:November 22, 2005 - v1
Checksum:i107111E44D2FD063
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000096 Genomic DNA. Translation: ABB24332.1.
RefSeqiWP_011358204.1. NC_007512.1.
YP_375375.1. NC_007512.1.

Genome annotation databases

EnsemblBacteriaiABB24332; ABB24332; Plut_1473.
GeneIDi3745461.
KEGGiplt:Plut_1473.
PATRICi21380584. VBIChlLut1287_1550.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000096 Genomic DNA. Translation: ABB24332.1 .
RefSeqi WP_011358204.1. NC_007512.1.
YP_375375.1. NC_007512.1.

3D structure databases

ProteinModelPortali Q3B2U9.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 319225.Plut_1473.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai ABB24332 ; ABB24332 ; Plut_1473 .
GeneIDi 3745461.
KEGGi plt:Plut_1473.
PATRICi 21380584. VBIChlLut1287_1550.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci PLUT319225:GHDM-1483-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. "Complete sequence of Pelodictyon luteolum DSM 273."
    US DOE Joint Genome Institute
    Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Bryant D., Schmutz J., Larimer F., Land M., Kyrpides N., Ivanova N., Richardson P.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: DSM 273.

Entry informationi

Entry nameiDEF_PELLD
AccessioniPrimary (citable) accession number: Q3B2U9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: November 22, 2005
Last modified: October 29, 2014
This is version 56 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