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CATH domain | Related DB codes (homologues) |
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3.40.50.720 : Rossmann fold | S00543,S00551,S00552,S00553,S00602,S00604,S00605,S00608,S00610,S00625,S00319,S00328,S00329,S00330,S00331,S00332,D00456,D00457,D00458,S00324,S00320,S00325,S00326,S00327,D00459,S00335,S00336,S00334,T00219,S00339,D00513,D00001,D00002,D00003,D00005,D00007,D00008,D00010,D00012,D00017,D00018,D00023,D00027,D00028,D00031,D00032,D00033,D00034,D00035,D00037,D00048,D00071,D00476,D00481,D00482,D00490,D00492,D00494,D00545,D00603,D00604,D00605,D00615,D00845,D00857,D00858,M00161,M00171,M00210,T00002,T00010,T00011,T00015,T00227,T00247,T00408,T00414,D00827,D00262,D00274,D00275,M00035,T00109 | 3.90.25.10 : UDP-galactose 4-epimerase; domain 1 | D00513,D00604,D00262,D00274,D00275 |
KEGG pathways | MAP code | Pathways |
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MAP00521 | Streptomycin biosynthesis | MAP00523 | Polyketide sugar unit biosynthesis |
UniProtKB:Accession Number | P26392 | Q9F7K7 | Q97GQ1 | Q96Z61 |
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Entry name | RFBD_SALTY | Q9F7K7_SALCH | Q97GQ1_CLOAB | Q96Z61_SULTO |
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Activity | dTDP-6-deoxy-L-mannose + NADP(+) = dTDP-4-dehydro-6-deoxy-L-mannose + NADPH. |
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References for Catalytic Mechanism | References | Sections | No. of steps in catalysis |
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[4] | p.13101 |
| [7] | Fig.6, p.782-783 |
| [8] | Fig.4, p.648-650 |
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references | [1] |
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PubMed ID | 7742302 |
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Journal | Biochemistry |
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Year | 1995 |
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Volume | 34 |
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Pages | 6003-13 |
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Authors | Jornvall H, Persson B, Krook M, Atrian S, Gonzalez-Duarte R, Jeffery J, Ghosh D |
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Title | Short-chain dehydrogenases/reductases (SDR). |
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[2] |
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Comments | X-RAY CRYSTALLOGRAPHY (1.7 ANGSTROMS). |
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PubMed ID | 8805577 |
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Journal | Structure |
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Year | 1996 |
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Volume | 4 |
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Pages | 905-15 |
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Authors | Breton R, Housset D, Mazza C, Fontecilla-Camps JC |
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Title | The structure of a complex of human 17beta-hydroxysteroid dehydrogenase with estradiol and NADP+ identifies two principal targets for the design of inhibitors. |
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Related PDB | 1fds,1fdt |
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Related UniProtKB | P14061 |
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[3] |
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Comments | X-RAY CRYSTALLOGRAPHY |
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PubMed ID | 9271498 |
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Journal | Biochemistry |
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Year | 1997 |
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Volume | 36 |
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Pages | 10675-84 |
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Authors | Liu Y, Thoden JB, Kim J, Berger E, Gulick AM, Ruzicka FJ, Holden HM, Frey PA |
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Title | Mechanistic roles of tyrosine 149 and serine 124 in UDP-galactose 4-epimerase from Escherichia coli. |
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Related PDB | 1kvu |
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[4] |
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Comments | X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS) IN COMPLEX WITH NAD(+) AND UDP-GLUCOSE. |
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PubMed ID | 10557279 |
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Journal | Proc Natl Acad Sci U S A |
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Year | 1999 |
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Volume | 96 |
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Pages | 13097-102 |
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Authors | Mulichak AM, Theisen MJ, Essigmann B, Benning C, Garavito RM |
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Title | Crystal structure of SQD1, an enzyme involved in the biosynthesis of the plant sulfolipid headgroup donor UDP-sulfoquinovose. |
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Related PDB | 1qrr |
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Related UniProtKB | O48917 |
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[5] |
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PubMed ID | 11478886 |
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Journal | Biochemistry |
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Year | 2001 |
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Volume | 40 |
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Pages | 9187-95 |
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Authors | Gerratana B, Cleland WW, Frey PA |
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Title | Mechanistic roles of Thr134, Tyr160, and Lys 164 in the reaction catalyzed by dTDP-glucose 4,6-dehydratase. |
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[6] |
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Comments | X-RAY CRYSTALLOGRAPHY |
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PubMed ID | 11243820 |
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Journal | J Mol Biol |
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Year | 2001 |
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Volume | 307 |
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Pages | 283-95 |
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Authors | Allard ST, Giraud MF, Whitfield C, Graninger M, Messner P, Naismith JH |
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Title | The crystal structure of dTDP-D-Glucose 4,6-dehydratase (RmlB) from Salmonella enterica serovar Typhimurium, the second enzyme in the dTDP-l-rhamnose pathway. |
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Related PDB | 1g1a |
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[7] |
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Comments | X-RAY CRYSTALLOGRAPHY |
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PubMed ID | 12057193 |
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Journal | Structure |
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Year | 2002 |
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Volume | 10 |
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Pages | 773-86 |
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Authors | Blankenfeldt W, Kerr ID, Giraud MF, McMiken HJ, Leonard G, Whitfield C, Messner P, Graninger M, Naismith JH |
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Title | Variation on a theme of SDR. dTDP-6-deoxy-L- lyxo-4-hexulose reductase (RmlD) shows a new Mg2+-dependent dimerization mode. |
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Related PDB | 1kbz,1kc1,1kc3,1kc0,1n2s |
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[8] |
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PubMed ID | 15493979 |
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Journal | Biochem Soc Trans |
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Year | 2004 |
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Volume | 32 |
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Pages | 647-54 |
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Authors | Naismith JH |
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Title | Chemical insights from structural studies of enzymes. |
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comments | This enzyme belongs to the Short-chain dehydrogenases/reductases (SDR) (literature [1] & [7]). This enzyme is homologous to Estradiol 17-beta-dehydrogenase 1 (EC=1.1.1.62, S00327 in EzCatDB), UDP-glucose 4-epimerase (EC=5.1.3.2, D00274) and dTDP-glucose 4,6-dehydratase (EC=4.2.1.46, D00262). Although this enzyme requires Mg2+ for full activity, Mg2+ is necessary for its dimerization rather than its catalysis (see [7]). According to the literature [7] and [8], the reaction of this enzyme proceeds as follows: (0) Lys132 (of 1kbz) modulates the activity (or pKa) of Tyr128 via 2'-hydroxyl group of NADPH, along with the N1 atom of the nicotinamide group in NAD, whereas Thr104 modulates the pKa of 4-carbonyl oxygen of the substrate. (1) Tyr128 acts as a general acid to protonate the carbonyl oxygen of the substrate. Meanwhile, the hydride transfer occurs from the C4 atom of the nicotinamide to the carbonyl carbon of the substrate.
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created | updated |
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2010-05-07 | 2011-06-01 |
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