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Q5N5L5

- Q5N5L5_SYNP6

UniProt

Q5N5L5 - Q5N5L5_SYNP6

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Protein

Peptide deformylase

Gene

def

Organism
Synechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (Anacystis nidulans)
Status
Unreviewed - Annotation score: 2 out of 5- Experimental evidence at protein leveli

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 annotationSAAS annotation

Cofactori

Binds 1 Fe2+ ion.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi109 – 1091IronUniRule annotation
Metal bindingi109 – 1091ZincImported
Metal bindingi151 – 1511IronUniRule annotation
Metal bindingi151 – 1511Zinc; via tele nitrogenImported
Active sitei152 – 1521UniRule annotation
Metal bindingi155 – 1551IronUniRule annotation
Metal bindingi155 – 1551Zinc; via tele nitrogenImported

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

HydrolaseUniRule annotationSAAS annotation

Keywords - Biological processi

Protein biosynthesisUniRule annotationSAAS annotation

Keywords - Ligandi

IronUniRule annotation, Metal-bindingUniRule annotationSAAS annotation, ZincImported

Enzyme and pathway databases

BioCyciSELO269084:GCDQ-219-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:syc0213_dImported
OrganismiSynechococcus sp. (strain ATCC 27144 / PCC 6301 / SAUG 1402/1) (Anacystis nidulans)Imported
Taxonomic identifieri269084 [NCBI]
Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
ProteomesiUP000001175: Chromosome

Interactioni

Protein-protein interaction databases

STRINGi269084.syc0213_d.

Structurei

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4DR8X-ray1.55A/B/C/D2-192[»]
4DR9X-ray1.90A/B/C/D2-192[»]
ProteinModelPortaliQ5N5L5.
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.

Q5N5L5 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MTAAVAIRVA KKKLAKPPLD LHYLGDRVLR QPAKRVSRID DELRQTIRQM
60 70 80 90 100
LQTMYSADGI GLAAPQVGIN KQLIVIDLEL EDEQAPPLVL INPKIERTAG
110 120 130 140 150
DLEQCQEGCL SIPGVYLDVE RPEIVEVSYK DENGRPQRLV ADGLLARCIQ
160 170 180 190
HEMDHLNGVL FVDRVENRLE LNEALDKKGF AVQAVRPVAA AS
Length:192
Mass (Da):21,350
Last modified:February 1, 2005 - v1
Checksum:i7F8107DD9B120FB7
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008231 Genomic DNA. Translation: BAD78403.1.
RefSeqiWP_011242527.1. NC_006576.1.
YP_170923.1. NC_006576.1.

Genome annotation databases

EnsemblBacteriaiBAD78403; BAD78403; syc0213_d.
GeneIDi3199121.
KEGGisyc:syc0213_d.
PATRICi32485956. VBISynElo117686_0255.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP008231 Genomic DNA. Translation: BAD78403.1 .
RefSeqi WP_011242527.1. NC_006576.1.
YP_170923.1. NC_006576.1.

3D structure databases

Select the link destinations:
PDBe
RCSB PDB
PDBj
Links Updated
Entry Method Resolution (Å) Chain Positions PDBsum
4DR8 X-ray 1.55 A/B/C/D 2-192 [» ]
4DR9 X-ray 1.90 A/B/C/D 2-192 [» ]
ProteinModelPortali Q5N5L5.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 269084.syc0213_d.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD78403 ; BAD78403 ; syc0213_d .
GeneIDi 3199121.
KEGGi syc:syc0213_d.
PATRICi 32485956. VBISynElo117686_0255.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci SELO269084:GCDQ-219-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

« Hide 'large scale' publications
  1. "Complete nucleotide sequence of the freshwater unicellular cyanobacterium Synechococcus elongatus PCC 6301 chromosome: gene content and organization."
    Sugita C., Ogata K., Shikata M., Jikuya H., Takano J., Furumichi M., Kanehisa M., Omata T., Sugiura M., Sugita M.
    Photosyn. Res. 93:55-67(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 27144 / PCC 6301 / SAUG 1402/1Imported.
  2. "Structure and function of a cyanophage-encoded peptide deformylase."
    Frank J.A., Lorimer D., Youle M., Witte P., Craig T., Abendroth J., Rohwer F., Edwards R.A., Segall A.M., Burgin A.B.
    ISME J. 7:1150-1160(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.55 ANGSTROMS) OF 2-192 IN COMPLEX WITH ZINC.

Entry informationi

Entry nameiQ5N5L5_SYNP6
AccessioniPrimary (citable) accession number: Q5N5L5
Entry historyi
Integrated into UniProtKB/TrEMBL: February 1, 2005
Last sequence update: February 1, 2005
Last modified: October 29, 2014
This is version 64 of the entry and version 1 of the sequence. [Complete history]
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

3D-structureImported, Complete proteomeImported

External Data

Dasty 3