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Protein

Peptide deformylase 2

Gene

def2

Organism
Gloeobacter violaceus (strain PCC 7421)
Status
Reviewed-Annotation score: 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 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi107 – 1071IronUniRule annotation
Metal bindingi149 – 1491IronUniRule annotation
Active sitei150 – 1501UniRule annotation
Metal bindingi153 – 1531IronUniRule 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

BioCyciGVIO251221:GH9A-2255-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Peptide deformylase 2UniRule annotation (EC:3.5.1.88UniRule annotation)
Short name:
PDF 2UniRule annotation
Alternative name(s):
Polypeptide deformylase 2UniRule annotation
Gene namesi
Name:def2UniRule annotation
Ordered Locus Names:gll2228
OrganismiGloeobacter violaceus (strain PCC 7421)
Taxonomic identifieri251221 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaGloeobacteriaGloeobacteralesGloeobacter
ProteomesiUP000000557: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 187187Peptide deformylase 2PRO_0000082786Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi251221.gll2228.

Structurei

3D structure databases

ProteinModelPortaliQ7NIF5.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the polypeptide deformylase family.UniRule annotation

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
InParanoidiQ7NIF5.
KOiK01462.
OMAiDTMLEMD.
OrthoDBiEOG664CMF.
PhylomeDBiQ7NIF5.

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.

Q7NIF5-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MANQLQVPKQ KLAKPPLAIH TLGDRVLRQG SKQISGINDE VRKLAQQMLQ
60 70 80 90 100
TMYSADGIGL AAPQVGVNKR MIVVDIDPEN AARPPLVLIN PLIKQFSSDL
110 120 130 140 150
AVDQEGCLSV PSIYADVRRP ERVVATYRDL NGRPVTLEAT GLLARCIQHE
160 170 180
IDHLDGVLFV DRVENQIALA PQLVEKGFAV RDVQVRA
Length:187
Mass (Da):20,557
Last modified:December 15, 2003 - v1
Checksum:i639E147377AAD007
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000045 Genomic DNA. Translation: BAC90169.1.
RefSeqiNP_925174.1. NC_005125.1.

Genome annotation databases

EnsemblBacteriaiBAC90169; BAC90169; BAC90169.
GeneIDi2600630.
KEGGigvi:gll2228.
PATRICi22043915. VBIGloVio86258_2260.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BA000045 Genomic DNA. Translation: BAC90169.1.
RefSeqiNP_925174.1. NC_005125.1.

3D structure databases

ProteinModelPortaliQ7NIF5.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi251221.gll2228.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAC90169; BAC90169; BAC90169.
GeneIDi2600630.
KEGGigvi:gll2228.
PATRICi22043915. VBIGloVio86258_2260.

Phylogenomic databases

eggNOGiCOG0242.
HOGENOMiHOG000243509.
InParanoidiQ7NIF5.
KOiK01462.
OMAiDTMLEMD.
OrthoDBiEOG664CMF.
PhylomeDBiQ7NIF5.

Enzyme and pathway databases

BioCyciGVIO251221:GH9A-2255-MONOMER.

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.
ProtoNetiSearch...

Publicationsi

  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: PCC 7421.

Entry informationi

Entry nameiDEF2_GLOVI
AccessioniPrimary (citable) accession number: Q7NIF5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 2003
Last sequence update: December 15, 2003
Last modified: February 4, 2015
This is version 73 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

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.