DB code: D00008

CATH domain 3.40.50.720 : Rossmann fold
3.90.110.10 : L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 Catalytic domain
E.C. 1.1.1.37
CSA 1emd
M-CSA 1emd
MACiE

CATH domain Related DB codes (homologues)
3.90.110.10 : L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 D00005 M00171 D00827
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 D00010 D00012 D00017 D00018 D00023 D00027 D00028 D00031 D00032 D00033 D00034 D00035 D00037 D00048 D00071 D00476 D00481 D00482 D00490 D00492 D00494 D00545 D00601 D00603 D00604 D00605 D00615 D00845 D00857 D00858 M00161 M00171 M00210 T00002 T00010 T00011 T00015 T00227 T00247 T00408 T00414 D00827 D00262 D00274 D00275 M00035 T00109

Uniprot Enzyme Name
UniprotKB Protein name Synonyms RefSeq Pfam
P61889 Malate dehydrogenase
EC 1.1.1.37
NP_417703.1 (Protein)
NC_000913.2 (DNA/RNA sequence)
YP_491420.1 (Protein)
NC_007779.1 (DNA/RNA sequence)
PF02866 (Ldh_1_C)
PF00056 (Ldh_1_N)
[Graphical View]
P00346 Malate dehydrogenase, mitochondrial
EC 1.1.1.37
PF02866 (Ldh_1_C)
PF00056 (Ldh_1_N)
[Graphical View]
Q07841 Malate dehydrogenase
EC 1.1.1.37
YP_137180.1 (Protein)
NC_006396.1 (DNA/RNA sequence)
PF02866 (Ldh_1_C)
PF00056 (Ldh_1_N)
[Graphical View]
P10584 Malate dehydrogenase
EC 1.1.1.37
PF02866 (Ldh_1_C)
PF00056 (Ldh_1_N)
[Graphical View]
P11708 Malate dehydrogenase, cytoplasmic
EC 1.1.1.37
Cytosolic malate dehydrogenase
NP_999039.1 (Protein)
NM_213874.1 (DNA/RNA sequence)
PF02866 (Ldh_1_C)
PF00056 (Ldh_1_N)
[Graphical View]

KEGG enzyme name
malate dehydrogenase
malic dehydrogenase
L-malate dehydrogenase
NAD-L-malate dehydrogenase
malic acid dehydrogenase
NAD-dependent malic dehydrogenase
NAD-malate dehydrogenase
NAD-malic dehydrogenase
malate (NAD) dehydrogenase
NAD-dependent malate dehydrogenase
NAD-specific malate dehydrogenase
NAD-linked malate dehydrogenase
MDH
L-malate-NAD+ oxidoreductase

UniprotKB: Accession Number Entry name Activity Subunit Subcellular location Cofactor
P61889 MDH_ECOLI (S)-malate + NAD(+) = oxaloacetate + NADH. Homodimer.
P00346 MDHM_PIG (S)-malate + NAD(+) = oxaloacetate + NADH. Homodimer. Mitochondrion matrix.
Q07841 MDH_HALMA (S)-malate + NAD(+) = oxaloacetate + NADH. Homotetramer, arranged as a dimer of dimers. Cytoplasm.
P10584 MDH_THETH (S)-malate + NAD(+) = oxaloacetate + NADH. Homodimer.
P11708 MDHC_PIG (S)-malate + NAD(+) = oxaloacetate + NADH. Homodimer. Cytoplasm.

KEGG Pathways
Map code Pathways E.C.
MAP00710 Carbon fixation in photosynthetic organisms
MAP00720 Reductive carboxylate cycle (CO2 fixation)
MAP00020 Citrate cycle (TCA cycle)
MAP00620 Pyruvate metabolism
MAP00630 Glyoxylate and dicarboxylate metabolism

Compound table
Substrates Products Intermediates
KEGG-id C00149 C00003 C00036 C00004 C00080
E.C.
Compound (S)-Malate NAD+ Oxaloacetate NADH H+
Type carbohydrate,carboxyl group amide group,amine group,nucleotide carbohydrate,carboxyl group amide group,amine group,nucleotide others
ChEBI 30797
15846
30744
16908
15378
PubChem 222656
5893
970
439153
1038
1emdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ib6A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ib6B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ib6C01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ib6D01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ie3A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ie3B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ie3C01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1ie3D01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
2cmdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mldA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mldB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mldC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1mldD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1d3aA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1d3aB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1gt2A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1gt2B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1hlpA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1hlpB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1o6zA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1o6zB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1o6zC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1o6zD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
2hlpA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
2hlpB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1bdmA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Analogue:NAX
1bdmB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Analogue:NAX
1bmdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1bmdB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Bound:NAD
1iz9A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1iz9B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
4mdhA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
4mdhB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
5mdhA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
5mdhB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Bound:NAD Unbound Unbound
1emdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1ib6A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ib6B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ib6C02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ib6D02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ie3A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ie3B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ie3C02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1ie3D02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
2cmdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1mldA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1mldB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1mldC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1mldD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Analogue:CIT Unbound Unbound Unbound
1d3aA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1d3aB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1gt2A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1gt2B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1hlpA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1hlpB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1o6zA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1o6zB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1o6zC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1o6zD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
2hlpA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
2hlpB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1bdmA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1bdmB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1bmdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1bmdB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1iz9A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
1iz9B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
4mdhA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
4mdhB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Unbound Unbound
5mdhA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Analogue:MAK Unbound
5mdhB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain Unbound Unbound Analogue:MAK Unbound

Reference for Active-site residues
resource references E.C.
Swiss-prot;P11708, P00346, P61889, Q07841, P10584 & literature [25]

Active-site residues
PDB Catalytic residues Cofactor-binding residues Modified residues Main-chain involved in catalysis Comment
1emdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ib6A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ib6B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ib6C01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ib6D01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ie3A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ie3B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ie3C01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1ie3D01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
2cmdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mldA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mldB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mldC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1mldD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1d3aA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1d3aB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1gt2A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1gt2B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1hlpA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1hlpB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1o6zA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1o6zB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1o6zC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1o6zD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
2hlpA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
2hlpB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1bdmA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1bdmB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1bmdA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1bmdB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1iz9A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1iz9B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
4mdhA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
4mdhB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
5mdhA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
5mdhB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain
1emdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;ARG 153;HIS 177
1ib6A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ib6B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ib6C02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ib6D02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ie3A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ie3B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ie3C02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
1ie3D02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;;HIS 177 mutant R153C
2cmdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 150;ARG 153;HIS 177
1mldA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 149;ARG 152;HIS 176
1mldB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 149;ARG 152;HIS 176
1mldC02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 149;ARG 152;HIS 176
1mldD02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 149;ARG 152;HIS 176
1d3aA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195
1d3aB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195
1gt2A01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
1gt2B01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
1hlpA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 166;ARG 169;HIS 193
1hlpB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 166;ARG 169;HIS 193
1o6zA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
1o6zB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
1o6zC01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
1o6zD01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant R207S, R292S
2hlpA01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant E267R
2hlpB01 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 168;ARG 171;HIS 195 mutant E267R
1bdmA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186 mutant T189I
1bdmB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186 mutant T189I
1bmdA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186
1bmdB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186
1iz9A02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 159;ARG 162;HIS 187
1iz9B02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 159;ARG 162;HIS 187
4mdhA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186
4mdhB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186
5mdhA02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186
5mdhB02 Pdbj logo s Rasmollogo id Rasmollogo chain Mmcif id Mmcif chain ASP 158;ARG 161;HIS 186

References for Catalytic Mechanism
References Sections No. of steps in catalysis
[4]
p.6077-6078
[7]
p.876-877
[13]
p.2084
[19]
p.4811-4815
[20]
[22]
[29]
Fig.3, p.261-263
[30]
p.711-712

References
[1]
Resource
Comments
Medline ID
PubMed ID 6239374
Journal Science
Year 1984
Volume 226
Pages 969-71
Authors Parthasarathy R, Fridey SM
Title Conformational variability of NAD+ in the free and bound states: a nicotinamide sandwich in NAD+ crystals.
Related PDB
Related UniProtKB
[2]
Resource
Comments X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS), AND PARTIAL SEQUENCE.
Medline ID 87271560
PubMed ID 3606987
Journal Biochemistry
Year 1987
Volume 26
Pages 2722-34
Authors Birktoft JJ, Bradshaw RA, Banaszak LJ
Title Structure of porcine heart cytoplasmic malate dehydrogenase: combining X-ray diffraction and chemical sequence data in structural studies.
Related PDB
Related UniProtKB P11708
[3]
Resource
Comments
Medline ID
PubMed ID 3398050
Journal J Mol Biol
Year 1988
Volume 200
Pages 609-10
Authors Harel M, Shoham M, Frolow F, Eisenberg H, Mevarech M, Yonath A, Sussman JL
Title Crystallization of halophilic malate dehydrogenase from Halobacterium marismortui.
Related PDB
Related UniProtKB
[4]
Resource
Comments X-RAY CRYSTALLOGRAPHY (2.5 ANGSTROMS).
Medline ID 89375338
PubMed ID 2775751
Journal Biochemistry
Year 1989
Volume 28
Pages 6065-81
Authors Birktoft JJ, Rhodes G, Banaszak LJ
Title Refined crystal structure of cytoplasmic malate dehydrogenase at 2.5-A resolution.
Related PDB 4mdh
Related UniProtKB P11708
[5]
Resource
Comments
Medline ID
PubMed ID 1678537
Journal Philos Trans R Soc Lond B Biol Sci
Year 1991
Volume 332
Pages 177-84
Authors Dunn CR, Wilks HM, Halsall DJ, Atkinson T, Clarke AR, Muirhead H, Holbrook JJ
Title Design and synthesis of new enzymes based on the lactate dehydrogenase framework.
Related PDB
Related UniProtKB
[6]
Resource
Comments
Medline ID
PubMed ID 1445401
Journal Biochem Soc Symp
Year 1992
Volume 58
Pages 113-25
Authors Eisenberg H
Title Halophilic malate dehydrogenase--a case history of biophysical investigations: ultracentrifugation, light-, X-ray- and neutron scattering.
Related PDB
Related UniProtKB
[7]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.87 ANGSTROMS).
Medline ID 92373767
PubMed ID 1507230
Journal J Mol Biol
Year 1992
Volume 226
Pages 867-82
Authors Hall MD, Levitt DG, Banaszak LJ
Title Crystal structure of Escherichia coli malate dehydrogenase. A complex of the apoenzyme and citrate at 1.87 A resolution.
Related PDB 1cmd 2cmd 1cme
Related UniProtKB P61889
[8]
Resource
Comments
Medline ID
PubMed ID 8476859
Journal Biochemistry
Year 1993
Volume 32
Pages 4308-13
Authors Cendrin F, Chroboczek J, Zaccai G, Eisenberg H, Mevarech M
Title Cloning, sequencing, and expression in Escherichia coli of the gene coding for malate dehydrogenase of the extremely halophilic archaebacterium Haloarcula marismortui.
Related PDB
Related UniProtKB
[9]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).
Medline ID
PubMed ID 8471603
Journal Biochemistry
Year 1993
Volume 32
Pages 3913-22
Authors Kelly CA, Nishiyama M, Ohnishi Y, Beppu T, Birktoft JJ
Title Determinants of protein thermostability observed in the 1.9-A crystal structure of malate dehydrogenase from the thermophilic bacterium Thermus flavus.
Related PDB 1bdm 1bmd
Related UniProtKB P10584
[10]
Resource
Comments
Medline ID
PubMed ID 8444839
Journal J Biol Chem
Year 1993
Volume 268
Pages 4656-60
Authors Nishiyama M, Birktoft JJ, Beppu T
Title Alteration of coenzyme specificity of malate dehydrogenase from Thermus flavus by site-directed mutagenesis.
Related PDB
Related UniProtKB
[11]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) IN COMPLEX WITH NAD AND CITRATE.
Medline ID
PubMed ID 8331658
Journal J Mol Biol
Year 1993
Volume 232
Pages 213-22
Authors Hall MD, Banaszak LJ
Title Crystal structure of a ternary complex of Escherichia coli malate dehydrogenase citrate and NAD at 1.9 A resolution.
Related PDB 1emd
Related UniProtKB P61889
[12]
Resource
Comments
Medline ID
PubMed ID 7849634
Journal Biochem Mol Biol Int
Year 1994
Volume 34
Pages 239-50
Authors Wani JH, Srivastava VM
Title Effect of cations and anthelmintics on enzymes of respiratory chains of the cestode Hymenolepis diminuta.
Related PDB
Related UniProtKB
[13]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).
Medline ID
PubMed ID 8117664
Journal Biochemistry
Year 1994
Volume 33
Pages 2078-88
Authors Gleason WB, Fu Z, Birktoft J, Banaszak L
Title Refined crystal structure of mitochondrial malate dehydrogenase from porcine heart and the consensus structure for dicarboxylic acid oxidoreductases.
Related PDB 1mld
Related UniProtKB P00346
[14]
Resource
Comments X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS).
Medline ID 94162212
PubMed ID 8011596
Journal J Mol Graph
Year 1994
Volume 12
Pages 14-21, 34
Authors Duffield ML, Nicholls DJ, Atkinson T, Scawen MD
Title An investigation of the thermal stabilities of two malate dehydrogenases by comparison of their three-dimensional structures.
Related PDB
Related UniProtKB P00346
[15]
Resource
Comments
Medline ID
PubMed ID 7703849
Journal Protein Sci
Year 1994
Volume 3
Pages 2023-32
Authors Breiter DR, Resnik E, Banaszak LJ
Title Engineering the quaternary structure of an enzyme: construction and analysis of a monomeric form of malate dehydrogenase from Escherichia coli.
Related PDB
Related UniProtKB
[16]
Resource
Comments
Medline ID
PubMed ID 7601139
Journal Eur J Biochem
Year 1995
Volume 230
Pages 1088-95
Authors Madern D, Pfister C, Zaccai G
Title Mutation at a single acidic amino acid enhances the halophilic behaviour of malate dehydrogenase from Haloarcula marismortui in physiological salts.
Related PDB
Related UniProtKB
[17]
Resource
Comments
Medline ID
PubMed ID 7476321
Journal Metabolism
Year 1995
Volume 44
Pages 1380-3
Authors Petersen KF, Blair JB, Shulman GI
Title Triiodothyronine treatment increases substrate cycling between pyruvate carboxylase and malic enzyme in perfused rat liver.
Related PDB
Related UniProtKB
[18]
Resource
Comments
Medline ID
PubMed ID 8901548
Journal Proc Natl Acad Sci U S A
Year 1996
Volume 93
Pages 12150-4
Authors Plochocka D, Welnicki M, Zielenkiewicz P, Ostoja-Zagorski W
Title Three-dimensional model of the potyviral genome-linked protein.
Related PDB
Related UniProtKB
[19]
Resource
Comments
Medline ID
PubMed ID 9125501
Journal Biochemistry
Year 1997
Volume 36
Pages 4800-16
Authors Cunningham MA, Ho LL, Nguyen DT, Gillilan RE, Bash PA
Title Simulation of the enzyme reaction mechanism of malate dehydrogenase.
Related PDB
Related UniProtKB
[20]
Resource
Comments
Medline ID
PubMed ID 9692968
Journal Biochemistry
Year 1998
Volume 37
Pages 10780-91
Authors Jairajpuri MA, Azam N, Baburaj K, Bulliraju E, Durani S
Title Charge and solvation effects in anion recognition centers: an inquiry exploiting reactive arginines.
Related PDB
Related UniProtKB
[21]
Resource
Comments X-ray crystallography
Medline ID
PubMed ID 10206992
Journal J Biol Chem
Year 1999
Volume 274
Pages 11761-7
Authors Kim SY, Hwang KY, Kim SH, Sung HC, Han YS, Cho Y
Title Structural basis for cold adaptation. Sequence, biochemical properties, and crystal structure of malate dehydrogenase from a psychrophile Aquaspirillium arcticum.
Related PDB 1b8p
Related UniProtKB
[22]
Resource
Comments X-RAY CRYSTALLOGRAPHY (2.4 ANGSTROMS).
Medline ID 99173114
PubMed ID 10075524
Journal J Mol Biol
Year 1999
Volume 285
Pages 703-12
Authors Chapman AD, Cortes A, Dafforn TR, Clarke AR, Brady RL
Title Structural basis of substrate specificity in malate dehydrogenases: crystal structure of a ternary complex of porcine cytoplasmic malate dehydrogenase, alpha-ketomalonate and tetrahydoNAD.
Related PDB 5mdh
Related UniProtKB P11708
[23]
Resource
Comments
Medline ID
PubMed ID 10653644
Journal Biochemistry
Year 2000
Volume 39
Pages 1001-10
Authors Madern D, Ebel C, Mevarech M, Richard SB, Pfister C, Zaccai G
Title Insights into the molecular relationships between malate and lactate dehydrogenases: structural and biochemical properties of monomeric and dimeric intermediates of a mutant of tetrameric L-[LDH-like] malate dehydrogenase from the halophilic archaeon Haloarcula marismortui.
Related PDB
Related UniProtKB
[24]
Resource
Comments X-ray crystallography
Medline ID
PubMed ID 10653643
Journal Biochemistry
Year 2000
Volume 39
Pages 992-1000
Authors Richard SB, Madern D, Garcin E, Zaccai G
Title Halophilic adaptation: novel solvent protein interactions observed in the 2.9 and 2.6 A resolution structures of the wild type and a mutant of malate dehydrogenase from Haloarcula marismortui.
Related PDB 1d3a 2hlp
Related UniProtKB
[25]
Resource
Comments X-RAY CRYSTALLOGRAPHY (2.1 ANGSTROMS) IN COMPLEX WITH NAD AND PYRUVATE, AND MUTAGENESIS OF ARG-153.
Medline ID
PubMed ID 11389141
Journal J Biol Chem
Year 2001
Volume 276
Pages 31156-62
Authors Bell JK, Yennawar HP, Wright SK, Thompson JR, Viola RE, Banaszak LJ
Title Structural analyses of a malate dehydrogenase with a variable active site.
Related PDB 1ib6 1ie3
Related UniProtKB P61889
[26]
Resource
Comments
Medline ID
PubMed ID 11292347
Journal J Mol Biol
Year 2001
Volume 307
Pages 1351-62
Authors Lee BI, Chang C, Cho SJ, Eom SH, Kim KK, Yu YG, Suh SW
Title Crystal structure of the MJ0490 gene product of the hyperthermophilic archaebacterium Methanococcus jannaschii, a novel member of the lactate/malate family of dehydrogenases.
Related PDB
Related UniProtKB
[27]
Resource
Comments
Medline ID
PubMed ID 11473265
Journal Nat Struct Biol
Year 2001
Volume 8
Pages 721-8
Authors Chen J, Walter S, Horwich AL, Smith DL
Title Folding of malate dehydrogenase inside the GroEL-GroES cavity.
Related PDB
Related UniProtKB
[28]
Resource
Comments
Medline ID
PubMed ID 11742111
Journal Protein Eng
Year 2001
Volume 14
Pages 911-7
Authors Trejo F, Gelpi JL, Ferrer A, Boronat A, Busquets M, Cortes A
Title Contribution of engineered electrostatic interactions to the stability of cytosolic malate dehydrogenase.
Related PDB
Related UniProtKB
[29]
Resource
Comments
Medline ID
PubMed ID 12537350
Journal Gen Physiol Biophys
Year 2002
Volume 21
Pages 257-65
Authors Minarik P, Tomaskova N, Kollarova M, Antalik M
Title Malate dehydrogenases--structure and function.
Related PDB
Related UniProtKB
[30]
Resource
Comments
Medline ID
PubMed ID 12054817
Journal J Mol Biol
Year 2002
Volume 318
Pages 707-21
Authors Dalhus B, Saarinen M, Sauer UH, Eklund P, Johansson K, Karlsson A, Ramaswamy S, Bjork A, Synstad B, Naterstad K, Sirevag R, Eklund H
Title Structural basis for thermophilic protein stability: structures of thermophilic and mesophilic malate dehydrogenases.
Related PDB
Related UniProtKB
[31]
Resource
Comments
Medline ID
PubMed ID 14572663
Journal FEBS Lett
Year 2003
Volume 553
Pages 423-6
Authors Bjork A, Mantzilas D, Sirevag R, Eijsink VG
Title Electrostatic interactions across the dimer-dimer interface contribute to the pH-dependent stability of a tetrameric malate dehydrogenase.
Related PDB
Related UniProtKB
[32]
Resource
Comments X-ray crystallography
Medline ID
PubMed ID 12581646
Journal J Mol Biol
Year 2003
Volume 326
Pages 859-73
Authors Irimia A, Ebel C, Madern D, Richard SB, Cosenza LW, Zaccai G, Vellieux FM
Title The Oligomeric states of Haloarcula marismortui malate dehydrogenase are modulated by solvent components as shown by crystallographic and biochemical studies.
Related PDB 1gt2 1o6z
Related UniProtKB
[33]
Resource
Comments
Medline ID
PubMed ID 14659762
Journal J Mol Biol
Year 2004
Volume 335
Pages 343-56
Authors Irimia A, Vellieux FM, Madern D, Zaccai G, Karshikoff A, Tibbelin G, Ladenstein R, Lien T, Birkeland NK
Title The 2.9A resolution crystal structure of malate dehydrogenase from Archaeoglobus fulgidus: mechanisms of oligomerisation and thermal stabilisation.
Related PDB
Related UniProtKB

Comments
This enzyme catalyzes the following reaction:
(A) Hydride transfer from substrate, (S)-malate, to NAD(+):

Created Updated
2004-03-24 2009-02-26