YMX7_YEAST
ID YMX7_YEAST Reviewed; 284 AA.
AC Q04299; D6VZR0;
DT 01-NOV-1997, integrated into UniProtKB/Swiss-Prot.
DT 01-NOV-1997, sequence version 1.
DT 03-AUG-2022, entry version 137.
DE RecName: Full=Probable ADP-ribose 1''-phosphate phosphatase YML087W;
DE EC=3.1.3.84;
GN OrderedLocusNames=YMR087W; ORFNames=YM9582.12;
OS Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast).
OC Eukaryota; Fungi; Dikarya; Ascomycota; Saccharomycotina; Saccharomycetes;
OC Saccharomycetales; Saccharomycetaceae; Saccharomyces.
OX NCBI_TaxID=559292;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=9169872;
RA Bowman S., Churcher C.M., Badcock K., Brown D., Chillingworth T.,
RA Connor R., Dedman K., Devlin K., Gentles S., Hamlin N., Hunt S., Jagels K.,
RA Lye G., Moule S., Odell C., Pearson D., Rajandream M.A., Rice P.,
RA Skelton J., Walsh S.V., Whitehead S., Barrell B.G.;
RT "The nucleotide sequence of Saccharomyces cerevisiae chromosome XIII.";
RL Nature 387:90-93(1997).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=24374639; DOI=10.1534/g3.113.008995;
RA Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R.,
RA Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S.,
RA Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.;
RT "The reference genome sequence of Saccharomyces cerevisiae: Then and now.";
RL G3 (Bethesda) 4:389-398(2014).
RN [3]
RP NUCLEOTIDE SEQUENCE [GENOMIC DNA].
RC STRAIN=ATCC 204508 / S288c;
RX PubMed=17322287; DOI=10.1101/gr.6037607;
RA Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F.,
RA Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J.,
RA Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J.,
RA Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D.,
RA LaBaer J.;
RT "Approaching a complete repository of sequence-verified protein-encoding
RT clones for Saccharomyces cerevisiae.";
RL Genome Res. 17:536-543(2007).
RN [4]
RP X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) IN COMPLEX WITH ADP-RIBOSE AND
RP XYLITOL, SUBUNIT, AND PROBABLE FUNCTION.
RX PubMed=15722447; DOI=10.1110/ps.041132005;
RA Kumaran D., Eswaramoorthy S., Studier F.W., Swaminathan S.;
RT "Structure and mechanism of ADP-ribose-1''-monophosphatase (Appr-1''-pase),
RT a ubiquitous cellular processing enzyme.";
RL Protein Sci. 14:719-726(2005).
CC -!- FUNCTION: Highly specific phosphatase involved in the metabolism of
CC ADP-ribose 1''-phosphate (Appr1p) which is produced as a consequence of
CC tRNA splicing. + phosphate.
CC -!- CATALYTIC ACTIVITY:
CC Reaction=ADP-beta-D-ribose 1''-phosphate + H2O = ADP-D-ribose +
CC phosphate; Xref=Rhea:RHEA:25029, ChEBI:CHEBI:15377,
CC ChEBI:CHEBI:43474, ChEBI:CHEBI:57967, ChEBI:CHEBI:58753; EC=3.1.3.84;
CC -!- SUBUNIT: Homodimer. {ECO:0000269|PubMed:15722447}.
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DR EMBL; Z49259; CAA89234.1; -; Genomic_DNA.
DR EMBL; AY558403; AAS56729.1; -; Genomic_DNA.
DR EMBL; BK006946; DAA09984.1; -; Genomic_DNA.
DR PIR; S54463; S54463.
DR RefSeq; NP_013805.1; NM_001182587.1.
DR PDB; 1NJR; X-ray; 1.90 A; A=1-284.
DR PDB; 1TXZ; X-ray; 2.05 A; A=1-284.
DR PDB; 1TY8; X-ray; 2.10 A; A=1-284.
DR PDBsum; 1NJR; -.
DR PDBsum; 1TXZ; -.
DR PDBsum; 1TY8; -.
DR AlphaFoldDB; Q04299; -.
DR SMR; Q04299; -.
DR BioGRID; 35262; 39.
DR DIP; DIP-1320N; -.
DR IntAct; Q04299; 1.
DR MINT; Q04299; -.
DR STRING; 4932.YMR087W; -.
DR MaxQB; Q04299; -.
DR PaxDb; Q04299; -.
DR PRIDE; Q04299; -.
DR EnsemblFungi; YMR087W_mRNA; YMR087W; YMR087W.
DR GeneID; 855112; -.
DR KEGG; sce:YMR087W; -.
DR SGD; S000004693; YMR087W.
DR VEuPathDB; FungiDB:YMR087W; -.
DR eggNOG; ENOG502QVAE; Eukaryota.
DR HOGENOM; CLU_093588_0_0_1; -.
DR OMA; RYIIHCP; -.
DR BioCyc; YEAST:G3O-32787-MON; -.
DR EvolutionaryTrace; Q04299; -.
DR PRO; PR:Q04299; -.
DR Proteomes; UP000002311; Chromosome XIII.
DR RNAct; Q04299; protein.
DR GO; GO:0016791; F:phosphatase activity; ISS:SGD.
DR GO; GO:0006388; P:tRNA splicing, via endonucleolytic cleavage and ligation; TAS:SGD.
DR Gene3D; 3.40.220.10; -; 1.
DR InterPro; IPR028071; Macro-like_dom.
DR InterPro; IPR002589; Macro_dom.
DR InterPro; IPR043472; Macro_dom-like.
DR Pfam; PF14519; Macro_2; 1.
DR SMART; SM00506; A1pp; 1.
DR SUPFAM; SSF52949; SSF52949; 1.
DR PROSITE; PS51154; MACRO; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Disulfide bond; Hydrolase; Reference proteome.
FT CHAIN 1..284
FT /note="Probable ADP-ribose 1''-phosphate phosphatase
FT YML087W"
FT /id="PRO_0000203285"
FT DOMAIN 34..230
FT /note="Macro"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00490"
FT ACT_SITE 80
FT /evidence="ECO:0000255"
FT ACT_SITE 90
FT /evidence="ECO:0000255"
FT ACT_SITE 145
FT /evidence="ECO:0000255"
FT BINDING 23
FT /ligand="substrate"
FT BINDING 55
FT /ligand="substrate"
FT BINDING 80
FT /ligand="substrate"
FT BINDING 90
FT /ligand="substrate"
FT BINDING 148
FT /ligand="substrate"
FT BINDING 195
FT /ligand="substrate"
FT DISULFID 128..136
FT STRAND 18..24
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 26..35
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 47..52
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 54..62
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 73..77
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 89..97
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 100..109
FT /evidence="ECO:0007829|PDB:1NJR"
FT TURN 110..112
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 121..124
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 125..129
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 140..145
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 152..154
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 162..165
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 167..179
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 186..190
FT /evidence="ECO:0007829|PDB:1NJR"
FT STRAND 193..196
FT /evidence="ECO:0007829|PDB:1TXZ"
FT HELIX 202..217
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 219..221
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 224..234
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 240..242
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 245..254
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 258..262
FT /evidence="ECO:0007829|PDB:1NJR"
FT TURN 266..268
FT /evidence="ECO:0007829|PDB:1NJR"
FT HELIX 271..273
FT /evidence="ECO:0007829|PDB:1NJR"
SQ SEQUENCE 284 AA; 32067 MW; A8584DBB7B4B0A6B CRC64;
MTGSLNRHSL LNGVKKMRII LCDTNEVVTN LWQESIPHAY IQNDKYLCIH HGHLQSLMDS
MRKGDAIHHG HSYAIVSPGN SYGYLGGGFD KALYNYFGGK PFETWFRNQL GGRYHTVGSA
TVVDLQRCLE EKTIECRDGI RYIIHVPTVV APSAPIFNPQ NPLKTGFEPV FNAMWNALMH
SPKDIDGLII PGLCTGYAGV PPIISCKSMA FALRLYMAGD HISKELKNVL IMYYLQYPFE
PFFPESCKIE CQKLGIDIEM LKSFNVEKDA IELLIPRRIL TLDL
