KDGD_AGRFC
ID KDGD_AGRFC Reviewed; 303 AA.
AC Q8UB77;
DT 15-AUG-2003, integrated into UniProtKB/Swiss-Prot.
DT 15-JAN-2008, sequence version 2.
DT 25-MAY-2022, entry version 99.
DE RecName: Full=Probable 5-dehydro-4-deoxyglucarate dehydratase {ECO:0000255|HAMAP-Rule:MF_00694};
DE EC=4.2.1.41 {ECO:0000255|HAMAP-Rule:MF_00694};
DE AltName: Full=5-keto-4-deoxy-glucarate dehydratase {ECO:0000255|HAMAP-Rule:MF_00694};
DE Short=KDGDH {ECO:0000255|HAMAP-Rule:MF_00694};
GN OrderedLocusNames=Atu3140; ORFNames=AGR_L_3338;
OS Agrobacterium fabrum (strain C58 / ATCC 33970) (Agrobacterium tumefaciens
OS (strain C58)).
OC Bacteria; Proteobacteria; Alphaproteobacteria; Hyphomicrobiales;
OC Rhizobiaceae; Rhizobium/Agrobacterium group; Agrobacterium;
OC Agrobacterium tumefaciens complex.
OX NCBI_TaxID=176299;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=C58 / ATCC 33970;
RX PubMed=11743193; DOI=10.1126/science.1066804;
RA Wood D.W., Setubal J.C., Kaul R., Monks D.E., Kitajima J.P., Okura V.K.,
RA Zhou Y., Chen L., Wood G.E., Almeida N.F. Jr., Woo L., Chen Y.,
RA Paulsen I.T., Eisen J.A., Karp P.D., Bovee D. Sr., Chapman P.,
RA Clendenning J., Deatherage G., Gillet W., Grant C., Kutyavin T., Levy R.,
RA Li M.-J., McClelland E., Palmieri A., Raymond C., Rouse G.,
RA Saenphimmachak C., Wu Z., Romero P., Gordon D., Zhang S., Yoo H., Tao Y.,
RA Biddle P., Jung M., Krespan W., Perry M., Gordon-Kamm B., Liao L., Kim S.,
RA Hendrick C., Zhao Z.-Y., Dolan M., Chumley F., Tingey S.V., Tomb J.-F.,
RA Gordon M.P., Olson M.V., Nester E.W.;
RT "The genome of the natural genetic engineer Agrobacterium tumefaciens
RT C58.";
RL Science 294:2317-2323(2001).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=C58 / ATCC 33970;
RX PubMed=11743194; DOI=10.1126/science.1066803;
RA Goodner B., Hinkle G., Gattung S., Miller N., Blanchard M., Qurollo B.,
RA Goldman B.S., Cao Y., Askenazi M., Halling C., Mullin L., Houmiel K.,
RA Gordon J., Vaudin M., Iartchouk O., Epp A., Liu F., Wollam C., Allinger M.,
RA Doughty D., Scott C., Lappas C., Markelz B., Flanagan C., Crowell C.,
RA Gurson J., Lomo C., Sear C., Strub G., Cielo C., Slater S.;
RT "Genome sequence of the plant pathogen and biotechnology agent
RT Agrobacterium tumefaciens C58.";
RL Science 294:2323-2328(2001).
CC -!- CATALYTIC ACTIVITY:
CC Reaction=5-dehydro-4-deoxy-D-glucarate + H(+) = 2,5-dioxopentanoate +
CC CO2 + H2O; Xref=Rhea:RHEA:24608, ChEBI:CHEBI:15377,
CC ChEBI:CHEBI:15378, ChEBI:CHEBI:16526, ChEBI:CHEBI:42819,
CC ChEBI:CHEBI:58136; EC=4.2.1.41; Evidence={ECO:0000255|HAMAP-
CC Rule:MF_00694};
CC -!- PATHWAY: Carbohydrate acid metabolism; D-glucarate degradation; 2,5-
CC dioxopentanoate from D-glucarate: step 2/2. {ECO:0000255|HAMAP-
CC Rule:MF_00694}.
CC -!- SIMILARITY: Belongs to the DapA family. {ECO:0000255|HAMAP-
CC Rule:MF_00694}.
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DR EMBL; AE007870; AAK90246.2; -; Genomic_DNA.
DR PIR; AF2942; AF2942.
DR PIR; D98340; D98340.
DR RefSeq; NP_357461.2; NC_003063.2.
DR RefSeq; WP_010972790.1; NC_003063.2.
DR PDB; 4UR7; X-ray; 1.50 A; A/B/C/D=3-303.
DR PDB; 4UR8; X-ray; 2.10 A; A/B/C/D=3-303.
DR PDB; 5HWJ; X-ray; 1.65 A; A/B/C/D=1-303.
DR PDB; 5HWM; X-ray; 2.10 A; A/B/C/D=1-303.
DR PDB; 5HWN; X-ray; 1.50 A; A/B/C/D=1-303.
DR PDBsum; 4UR7; -.
DR PDBsum; 4UR8; -.
DR PDBsum; 5HWJ; -.
DR PDBsum; 5HWM; -.
DR PDBsum; 5HWN; -.
DR AlphaFoldDB; Q8UB77; -.
DR SMR; Q8UB77; -.
DR STRING; 176299.Atu3140; -.
DR EnsemblBacteria; AAK90246; AAK90246; Atu3140.
DR GeneID; 66223458; -.
DR KEGG; atu:Atu3140; -.
DR PATRIC; fig|176299.10.peg.2985; -.
DR eggNOG; COG0329; Bacteria.
DR HOGENOM; CLU_049343_5_2_5; -.
DR OMA; MVYNRDN; -.
DR PhylomeDB; Q8UB77; -.
DR BRENDA; 4.2.1.41; 14964.
DR UniPathway; UPA00564; UER00628.
DR Proteomes; UP000000813; Chromosome linear.
DR GO; GO:0047448; F:5-dehydro-4-deoxyglucarate dehydratase activity; IEA:UniProtKB-UniRule.
DR GO; GO:0042838; P:D-glucarate catabolic process; IEA:UniProtKB-UniPathway.
DR CDD; cd00951; KDGDH; 1.
DR Gene3D; 3.20.20.70; -; 1.
DR HAMAP; MF_00694; KDGDH; 1.
DR InterPro; IPR013785; Aldolase_TIM.
DR InterPro; IPR002220; DapA-like.
DR InterPro; IPR017655; Dehydro-deoxyglucarate_dehyd.
DR PANTHER; PTHR12128; PTHR12128; 1.
DR Pfam; PF00701; DHDPS; 1.
DR PIRSF; PIRSF001365; DHDPS; 1.
DR SMART; SM01130; DHDPS; 1.
DR TIGRFAMs; TIGR03249; KdgD; 1.
PE 1: Evidence at protein level;
KW 3D-structure; Lyase; Reference proteome.
FT CHAIN 1..303
FT /note="Probable 5-dehydro-4-deoxyglucarate dehydratase"
FT /id="PRO_0000103229"
FT HELIX 3..10
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 30..41
FT /evidence="ECO:0007829|PDB:5HWN"
FT TURN 42..44
FT /evidence="ECO:0007829|PDB:5HWJ"
FT STRAND 46..50
FT /evidence="ECO:0007829|PDB:5HWN"
FT TURN 53..56
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 57..59
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 64..75
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 80..85
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 89..101
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 105..109
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 119..131
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 134..142
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 149..158
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 162..167
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 172..182
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 183..185
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 186..190
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 195..197
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 199..205
FT /evidence="ECO:0007829|PDB:5HWN"
FT STRAND 209..211
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 213..216
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 219..231
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 234..243
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 245..252
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 258..269
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 286..296
FT /evidence="ECO:0007829|PDB:5HWN"
FT HELIX 297..299
FT /evidence="ECO:0007829|PDB:5HWN"
SQ SEQUENCE 303 AA; 32485 MW; D7762BDF080801AF CRC64;
MNPEQIKTAL GSGLLSFPVT HFDAEGRFAA DSYREHVEWL AGYKAPVLFA AGGTGEFFSL
KPDEIPTIVA AAKEVAGETA IVSGCGYGTE IAVDIARSVE KVGADGILLL PHYLIDAPQE
GLYAHIKKVC QSVGIGVMVY NRDNSVLQAD TLARLCDECP NLVGFKDGTG DIGLVRQITA
KMGDRLMYLG GMPTAELFAE AYLGAGFTTY SSAVFNFVPG LANEFYAALR AGERATCERI
LVDFFYPFMA IRNRAKGYAV SAVKAGVRLQ GFNAGPVRAP LKDLTNEEIG MLEALIGTHK
RKA
