ID   DEF1_GLOVI              Reviewed;         227 AA.
AC   Q7NJV3;
DT   15-DEC-2003, integrated into UniProtKB/Swiss-Prot.
DT   15-DEC-2003, sequence version 1.
DT   24-JAN-2024, entry version 110.
DE   RecName: Full=Peptide deformylase 1 {ECO:0000255|HAMAP-Rule:MF_00163};
DE            Short=PDF 1 {ECO:0000255|HAMAP-Rule:MF_00163};
DE            EC=3.5.1.88 {ECO:0000255|HAMAP-Rule:MF_00163};
DE   AltName: Full=Polypeptide deformylase 1 {ECO:0000255|HAMAP-Rule:MF_00163};
GN   Name=def1 {ECO:0000255|HAMAP-Rule:MF_00163};
GN   OrderedLocusNames=glr1729;
OS   Gloeobacter violaceus (strain ATCC 29082 / PCC 7421).
OC   Bacteria; Cyanobacteriota; Cyanophyceae; Gloeobacterales; Gloeobacteraceae;
OC   Gloeobacter.
OX   NCBI_TaxID=251221;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC   STRAIN=ATCC 29082 / PCC 7421;
RX   PubMed=14621292; DOI=10.1093/dnares/10.4.137;
RA   Nakamura Y., Kaneko T., Sato S., Mimuro M., Miyashita H., Tsuchiya T.,
RA   Sasamoto S., Watanabe A., Kawashima K., Kishida Y., Kiyokawa C., Kohara M.,
RA   Matsumoto M., Matsuno A., Nakazaki N., Shimpo S., Takeuchi C., Yamada M.,
RA   Tabata S.;
RT   "Complete genome structure of Gloeobacter violaceus PCC 7421, a
RT   cyanobacterium that lacks thylakoids.";
RL   DNA Res. 10:137-145(2003).
CC   -!- FUNCTION: Removes the formyl group from the N-terminal Met of newly
CC       synthesized proteins. Requires at least a dipeptide for an efficient
CC       rate of reaction. N-terminal L-methionine is a prerequisite for
CC       activity but the enzyme has broad specificity at other positions.
CC       {ECO:0000255|HAMAP-Rule:MF_00163}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=H2O + N-terminal N-formyl-L-methionyl-[peptide] = formate + N-
CC         terminal L-methionyl-[peptide]; Xref=Rhea:RHEA:24420, Rhea:RHEA-
CC         COMP:10639, Rhea:RHEA-COMP:10640, ChEBI:CHEBI:15377,
CC         ChEBI:CHEBI:15740, ChEBI:CHEBI:49298, ChEBI:CHEBI:64731; EC=3.5.1.88;
CC         Evidence={ECO:0000255|HAMAP-Rule:MF_00163};
CC   -!- COFACTOR:
CC       Name=Fe(2+); Xref=ChEBI:CHEBI:29033; Evidence={ECO:0000255|HAMAP-
CC         Rule:MF_00163};
CC       Note=Binds 1 Fe(2+) ion. {ECO:0000255|HAMAP-Rule:MF_00163};
CC   -!- SIMILARITY: Belongs to the polypeptide deformylase family.
CC       {ECO:0000255|HAMAP-Rule:MF_00163}.
CC   -!- SEQUENCE CAUTION:
CC       Sequence=BAC89670.1; Type=Erroneous initiation; Evidence={ECO:0000305};
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DR   EMBL; BA000045; BAC89670.1; ALT_INIT; Genomic_DNA.
DR   RefSeq; NP_924675.1; NC_005125.1.
DR   AlphaFoldDB; Q7NJV3; -.
DR   SMR; Q7NJV3; -.
DR   STRING; 251221.gene:10759220; -.
DR   EnsemblBacteria; BAC89670; BAC89670; BAC89670.
DR   KEGG; gvi:glr1729; -.
DR   PATRIC; fig|251221.4.peg.1757; -.
DR   eggNOG; COG0242; Bacteria.
DR   HOGENOM; CLU_1011066_0_0_3; -.
DR   InParanoid; Q7NJV3; -.
DR   OrthoDB; 9784988at2; -.
DR   PhylomeDB; Q7NJV3; -.
DR   Proteomes; UP000000557; Chromosome.
DR   GO; GO:0046872; F:metal ion binding; IEA:UniProtKB-KW.
DR   GO; GO:0042586; F:peptide deformylase activity; IBA:GO_Central.
DR   GO; GO:0043686; P:co-translational protein modification; IBA:GO_Central.
DR   GO; GO:0006412; P:translation; IEA:UniProtKB-UniRule.
DR   CDD; cd00487; Pep_deformylase; 1.
DR   Gene3D; 3.90.45.10; Peptide deformylase; 1.
DR   HAMAP; MF_00163; Pep_deformylase; 1.
DR   InterPro; IPR023635; Peptide_deformylase.
DR   InterPro; IPR036821; Peptide_deformylase_sf.
DR   NCBIfam; TIGR00079; pept_deformyl; 1.
DR   PANTHER; PTHR10458; PEPTIDE DEFORMYLASE; 1.
DR   PANTHER; PTHR10458:SF2; PEPTIDE DEFORMYLASE, MITOCHONDRIAL; 1.
DR   Pfam; PF01327; Pep_deformylase; 1.
DR   PRINTS; PR01576; PDEFORMYLASE.
DR   SUPFAM; SSF56420; Peptide deformylase; 1.
PE   3: Inferred from homology;
KW   Hydrolase; Iron; Metal-binding; Protein biosynthesis; Reference proteome.
FT   CHAIN           1..227
FT                   /note="Peptide deformylase 1"
FT                   /id="PRO_0000082785"
FT   ACT_SITE        196
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00163"
FT   BINDING         153
FT                   /ligand="Fe cation"
FT                   /ligand_id="ChEBI:CHEBI:24875"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00163"
FT   BINDING         195
FT                   /ligand="Fe cation"
FT                   /ligand_id="ChEBI:CHEBI:24875"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00163"
FT   BINDING         199
FT                   /ligand="Fe cation"
FT                   /ligand_id="ChEBI:CHEBI:24875"
FT                   /evidence="ECO:0000255|HAMAP-Rule:MF_00163"
SQ   SEQUENCE   227 AA;  25170 MW;  CB0A4FE000DC1551 CRC64;
     MHLKRAYPKD CLSGVGSNAC RIGDRQSRYP VTIECESTGT SGGGVYEIVK TGDPVLRLTA
     KPLNSDEIQS EAIQQLIAAM AERMREAPGV GLAAPQVGVS VQLVVIEDRP EYIERLSGAE
     RREREREPVP FHVLINPVLS VEGEESAVFF EGCLSIPGYQ GLVARARVVR VEALDERAAP
     VVIRAHGWYA RILQHEIDHL NGLLCVDRMD LQTFSTLENY DRFWRGG
//