SCOP 1.73: Protein: Malate dehydrogenase

Lineage for Protein: Malate dehydrogenase

Root: SCOP 1.73
Class c: Alpha and beta proteins (a/b) [51349] (141 folds)

Fold c.2: NAD(P)-binding Rossmann-fold domains [51734] (1 superfamily)
core: 3 layers, a/b/a; parallel beta-sheet of 6 strands, order 321456
The nucleotide-binding modes of this and the next two folds/superfamilies are similar

Superfamily c.2.1: NAD(P)-binding Rossmann-fold domains [51735] (12 families)
Family c.2.1.5: LDH N-terminal domain-like [51848] (8 proteins)
Protein Malate dehydrogenase [51849] (12 species)

Species:

Aquaspirillum arcticum [TaxId:87645] [51856] (3 PDB entries)
1. Domain for 1b8p:
  - Domain d1b8pa1: 1b8p A:3-158 [30147]
    Other proteins in same PDB: d1b8pa2
2. Domain for 1b8u:
  - Domain d1b8ua1: 1b8u A:3-158 [30149]
    Other proteins in same PDB: d1b8ua2
    complexed with nad, oaa
3. Domain for 1b8v:
  - Domain d1b8va1: 1b8v A:3-158 [30148]
    Other proteins in same PDB: d1b8va2
    complexed with nah
Archaeon Archaeoglobus fulgidus [TaxId:2234] [110427] (2 PDB entries)
1. Domain for 1ojs:
  - Domain d1ojsa1: 1ojs A:22-163 [103988]
    Other proteins in same PDB: d1ojsa2
    complexed with na, nad, so4
2. Domain for 1oju:
  - Domain d1ojua1: 1oju A:22-163 [103990]
    Other proteins in same PDB: d1ojua2
    complexed with ena, nca, so4
Archaeon Haloarcula marismortui [TaxId:2238] [51855] (8 PDB entries)
1. Domains for 1d3a:
  1. Domain d1d3aa1: 1d3a A:22-162 [30143]
    Other proteins in same PDB: d1d3aa2, d1d3ab2
  2. Domain d1d3ab1: 1d3a B:22-162 [30144]
    Other proteins in same PDB: d1d3aa2, d1d3ab2
    complexed with cl, na
2. Domains for 1gt2:
  1. Domain d1gt2a1: 1gt2 A:22-162 [76338]
    Other proteins in same PDB: d1gt2a2, d1gt2b2
  2. Domain d1gt2b1: 1gt2 B:22-162 [76340]
    Other proteins in same PDB: d1gt2a2, d1gt2b2
    complexed with cl, na, nad; mutant
3. Domains for 1hlp:
  1. Domain d1hlpa1: 1hlp A:21-162 [30145]
    Other proteins in same PDB: d1hlpa2, d1hlpb2
  2. Domain d1hlpb1: 1hlp B:21-162 [30146]
    Other proteins in same PDB: d1hlpa2, d1hlpb2
    complexed with nad
4. Domains for 1o6z:
  1. Domain d1o6za1: 1o6z A:22-162 [81107]
    Other proteins in same PDB: d1o6za2, d1o6zb2, d1o6zc2, d1o6zd2
  2. Domain d1o6zb1: 1o6z B:22-162 [81109]
    Other proteins in same PDB: d1o6za2, d1o6zb2, d1o6zc2, d1o6zd2
  3. Domain d1o6zc1: 1o6z C:22-162 [81111]
    Other proteins in same PDB: d1o6za2, d1o6zb2, d1o6zc2, d1o6zd2
  4. Domain d1o6zd1: 1o6z D:22-162 [81113]
    Other proteins in same PDB: d1o6za2, d1o6zb2, d1o6zc2, d1o6zd2
    complexed with cl, nad; mutant
5. Domains for 2hlp:
  1. Domain d2hlpa1: 2hlp A:22-162 [30141]
    Other proteins in same PDB: d2hlpa2, d2hlpb2
  2. Domain d2hlpb1: 2hlp B:22-162 [30142]
    Other proteins in same PDB: d2hlpa2, d2hlpb2
6. Domains for 2j5k:
  1. Domain d2j5ka1: 2j5k A:22-163 [138037]
    Other proteins in same PDB: d2j5ka2, d2j5kb2, d2j5kc2, d2j5kd2
    automatically matched to d1hlpa1
    complexed with cl
  2. Domain d2j5kb1: 2j5k B:22-163 [138039]
    Other proteins in same PDB: d2j5ka2, d2j5kb2, d2j5kc2, d2j5kd2
    automatically matched to d1hlpa1
    complexed with cl
  3. Domain d2j5kc1: 2j5k C:22-163 [138041]
    Other proteins in same PDB: d2j5ka2, d2j5kb2, d2j5kc2, d2j5kd2
    automatically matched to d1hlpa1
    complexed with cl
  4. Domain d2j5kd1: 2j5k D:22-163 [138043]
    Other proteins in same PDB: d2j5ka2, d2j5kb2, d2j5kc2, d2j5kd2
    automatically matched to d1hlpa1
    complexed with cl
7. Domains for 2j5q:
  1. Domain d2j5qa1: 2j5q A:22-163 [138051]
    Other proteins in same PDB: d2j5qa2, d2j5qb2, d2j5qc2, d2j5qd2
    automatically matched to d1hlpa1
    complexed with cl
  2. Domain d2j5qb1: 2j5q B:22-163 [138053]
    Other proteins in same PDB: d2j5qa2, d2j5qb2, d2j5qc2, d2j5qd2
    automatically matched to d1hlpa1
    complexed with cl
  3. Domain d2j5qc1: 2j5q C:22-163 [138055]
    Other proteins in same PDB: d2j5qa2, d2j5qb2, d2j5qc2, d2j5qd2
    automatically matched to d1hlpa1
    complexed with cl
  4. Domain d2j5qd1: 2j5q D:22-163 [138057]
    Other proteins in same PDB: d2j5qa2, d2j5qb2, d2j5qc2, d2j5qd2
    automatically matched to d1hlpa1
    complexed with cl
8. Domains for 2j5r:
  1. Domain d2j5ra1: 2j5r A:22-163 [138059]
    Other proteins in same PDB: d2j5ra2, d2j5rb2, d2j5rc2, d2j5rd2
    automatically matched to d1hlpa1
    complexed with cl
  2. Domain d2j5rb1: 2j5r B:22-163 [138061]
    Other proteins in same PDB: d2j5ra2, d2j5rb2, d2j5rc2, d2j5rd2
    automatically matched to d1hlpa1
    complexed with cl
  3. Domain d2j5rc1: 2j5r C:22-163 [138063]
    Other proteins in same PDB: d2j5ra2, d2j5rb2, d2j5rc2, d2j5rd2
    automatically matched to d1hlpa1
    complexed with cl
  4. Domain d2j5rd1: 2j5r D:22-163 [138065]
    Other proteins in same PDB: d2j5ra2, d2j5rb2, d2j5rc2, d2j5rd2
    automatically matched to d1hlpa1
    complexed with cl
Chlorobium tepidum [TaxId:1097] [69416] (1 PDB entry)
- Domains for 1gv0:
  1. Domain d1gv0a1: 1gv0 A:1-142 [65594]
    Other proteins in same PDB: d1gv0a2, d1gv0b2
  2. Domain d1gv0b1: 1gv0 B:1-142 [65596]
    Other proteins in same PDB: d1gv0a2, d1gv0b2
    complexed with nad
Chlorobium vibrioforme [TaxId:1098] [69417] (2 PDB entries)
1. Domains for 1guz:
  1. Domain d1guza1: 1guz A:1-142 [65586]
    Other proteins in same PDB: d1guza2, d1guzb2, d1guzc2, d1guzd2
  2. Domain d1guzb1: 1guz B:1-142 [65588]
    Other proteins in same PDB: d1guza2, d1guzb2, d1guzc2, d1guzd2
  3. Domain d1guzc1: 1guz C:1-142 [65590]
    Other proteins in same PDB: d1guza2, d1guzb2, d1guzc2, d1guzd2
  4. Domain d1guzd1: 1guz D:1-142 [65592]
    Other proteins in same PDB: d1guza2, d1guzb2, d1guzc2, d1guzd2
    complexed with nad
2. Domains for 1gv1:
  1. Domain d1gv1a1: 1gv1 A:1-142 [65598]
    Other proteins in same PDB: d1gv1a2, d1gv1b2, d1gv1c2, d1gv1d2
  2. Domain d1gv1b1: 1gv1 B:1-142 [65600]
    Other proteins in same PDB: d1gv1a2, d1gv1b2, d1gv1c2, d1gv1d2
  3. Domain d1gv1c1: 1gv1 C:1-142 [65602]
    Other proteins in same PDB: d1gv1a2, d1gv1b2, d1gv1c2, d1gv1d2
  4. Domain d1gv1d1: 1gv1 D:1-142 [65604]
    Other proteins in same PDB: d1gv1a2, d1gv1b2, d1gv1c2, d1gv1d2
Chloroflexus aurantiacus [TaxId:1108] [69415] (7 PDB entries)
1. Domains for 1guy:
  1. Domain d1guya1: 1guy A:1-143 [65582]
    Other proteins in same PDB: d1guya2, d1guyc2
  2. Domain d1guyc1: 1guy C:1-143 [65584]
    Other proteins in same PDB: d1guya2, d1guyc2
    complexed with cd, nad
2. Domains for 1ur5:
  1. Domain d1ur5a1: 1ur5 A:2-143 [99807]
    Other proteins in same PDB: d1ur5a2, d1ur5c2
  2. Domain d1ur5c1: 1ur5 C:2-143 [99809]
    Other proteins in same PDB: d1ur5a2, d1ur5c2
    complexed with cd, cl, na, nad; mutant
3. Domains for 1uxg:
  1. Domain d1uxga1: 1uxg A:2-143 [108100]
    Other proteins in same PDB: d1uxga2, d1uxgb2
  2. Domain d1uxgb1: 1uxg B:2-143 [108102]
    Other proteins in same PDB: d1uxga2, d1uxgb2
    complexed with fmr, nad; mutant
4. Domains for 1uxh:
  1. Domain d1uxha1: 1uxh A:2-143 [108104]
    Other proteins in same PDB: d1uxha2, d1uxhb2
  2. Domain d1uxhb1: 1uxh B:2-143 [108106]
    Other proteins in same PDB: d1uxha2, d1uxhb2
    complexed with fmr, nad; mutant
5. Domains for 1uxi:
  1. Domain d1uxia1: 1uxi A:2-143 [108108]
    Other proteins in same PDB: d1uxia2, d1uxib2
  2. Domain d1uxib1: 1uxi B:2-143 [108110]
    Other proteins in same PDB: d1uxia2, d1uxib2
    complexed with fmr, na, nad; mutant
6. Domains for 1uxj:
  1. Domain d1uxja1: 1uxj A:2-143 [108112]
    Other proteins in same PDB: d1uxja2, d1uxjc2
  2. Domain d1uxjc1: 1uxj C:2-143 [108114]
    Other proteins in same PDB: d1uxja2, d1uxjc2
    complexed with cd, cl, na, nad; mutant
7. Domains for 1uxk:
  1. Domain d1uxka1: 1uxk A:2-143 [108116]
    Other proteins in same PDB: d1uxka2, d1uxkc2
  2. Domain d1uxkc1: 1uxk C:2-143 [108118]
    Other proteins in same PDB: d1uxka2, d1uxkc2
    complexed with cd, cl, na, nad; mutant
Escherichia coli [TaxId:562] [51853] (5 PDB entries)
1. Domain for 1emd:
  - Domain d1emda1: 1emd A:1-145 [30136]
    Other proteins in same PDB: d1emda2
    complexed with cit, nad
2. Domains for 1ib6:
  1. Domain d1ib6a1: 1ib6 A:1-145 [62146]
    Other proteins in same PDB: d1ib6a2, d1ib6b2, d1ib6c2, d1ib6d2
  2. Domain d1ib6b1: 1ib6 B:1-145 [62148]
    Other proteins in same PDB: d1ib6a2, d1ib6b2, d1ib6c2, d1ib6d2
  3. Domain d1ib6c1: 1ib6 C:1-145 [62150]
    Other proteins in same PDB: d1ib6a2, d1ib6b2, d1ib6c2, d1ib6d2
  4. Domain d1ib6d1: 1ib6 D:1-145 [62152]
    Other proteins in same PDB: d1ib6a2, d1ib6b2, d1ib6c2, d1ib6d2
    complexed with nad, so4; mutant
3. Domains for 1ie3:
  1. Domain d1ie3a1: 1ie3 A:1-145 [62304]
    Other proteins in same PDB: d1ie3a2, d1ie3b2, d1ie3c2, d1ie3d2
  2. Domain d1ie3b1: 1ie3 B:1-145 [62306]
    Other proteins in same PDB: d1ie3a2, d1ie3b2, d1ie3c2, d1ie3d2
  3. Domain d1ie3c1: 1ie3 C:1-145 [62308]
    Other proteins in same PDB: d1ie3a2, d1ie3b2, d1ie3c2, d1ie3d2
  4. Domain d1ie3d1: 1ie3 D:1-145 [62310]
    Other proteins in same PDB: d1ie3a2, d1ie3b2, d1ie3c2, d1ie3d2
    complexed with nad, pyr; mutant
4. Domain for 2cmd:
  - Domain d2cmda1: 2cmd A:1-145 [30135]
    Other proteins in same PDB: d2cmda2
    complexed with cit
5. Domains for 2pwz:
  1. Domain d2pwza1: 2pwz A:1-145 [139766]
    Other proteins in same PDB: d2pwza2, d2pwzc2, d2pwze2, d2pwzg2
    automatically matched to d1emd_1
  2. Domain d2pwzc1: 2pwz C:1-145 [139768]
    Other proteins in same PDB: d2pwza2, d2pwzc2, d2pwze2, d2pwzg2
    automatically matched to d1emd_1
  3. Domain d2pwze1: 2pwz E:1-145 [139770]
    Other proteins in same PDB: d2pwza2, d2pwzc2, d2pwze2, d2pwzg2
    automatically matched to d1emd_1
  4. Domain d2pwzg1: 2pwz G:1-145 [139772]
    Other proteins in same PDB: d2pwza2, d2pwzc2, d2pwze2, d2pwzg2
    automatically matched to d1emd_1
Flaveria bidentis, chloroplast [TaxId:4224] [51852] (1 PDB entry)
- Domain for 1civ:
  - Domain d1civa1: 1civ A:12-193 [30134]
    Other proteins in same PDB: d1civa2
    complexed with nap
Pig (Sus scrofa) [TaxId:9823] [51850] (3 PDB entries)
1. Domains for 1mld:
  1. Domain d1mlda1: 1mld A:1-144 [30122]
    Other proteins in same PDB: d1mlda2, d1mldb2, d1mldc2, d1mldd2
  2. Domain d1mldb1: 1mld B:1-144 [30123]
    Other proteins in same PDB: d1mlda2, d1mldb2, d1mldc2, d1mldd2
  3. Domain d1mldc1: 1mld C:1-144 [30124]
    Other proteins in same PDB: d1mlda2, d1mldb2, d1mldc2, d1mldd2
  4. Domain d1mldd1: 1mld D:1-144 [30125]
    Other proteins in same PDB: d1mlda2, d1mldb2, d1mldc2, d1mldd2
    complexed with cit
2. Domains for 4mdh:
  1. Domain d4mdha1: 4mdh A:1-154 [30128]
    Other proteins in same PDB: d4mdha2, d4mdhb2
  2. Domain d4mdhb1: 4mdh B:1-154 [30129]
    Other proteins in same PDB: d4mdha2, d4mdhb2
    complexed with nad, sul
3. Domains for 5mdh:
  1. Domain d5mdha1: 5mdh A:1-154 [30126]
    Other proteins in same PDB: d5mdha2, d5mdhb2
  2. Domain d5mdhb1: 5mdh B:1-154 [30127]
    Other proteins in same PDB: d5mdha2, d5mdhb2
    complexed with mak, nad
Sorghum (Sorghum vulgare), chloroplast [TaxId:4558] [51851] (1 PDB entry)
- Domains for 7mdh:
  1. Domain d7mdha1: 7mdh A:23-197 [30130]
    Other proteins in same PDB: d7mdha2, d7mdhb2, d7mdhc2, d7mdhd2
  2. Domain d7mdhb1: 7mdh B:21-197 [30131]
    Other proteins in same PDB: d7mdha2, d7mdhb2, d7mdhc2, d7mdhd2
  3. Domain d7mdhc1: 7mdh C:23-197 [30132]
    Other proteins in same PDB: d7mdha2, d7mdhb2, d7mdhc2, d7mdhd2
  4. Domain d7mdhd1: 7mdh D:21-197 [30133]
    Other proteins in same PDB: d7mdha2, d7mdhb2, d7mdhc2, d7mdhd2
    complexed with zn; mutant
Thermus flavus [TaxId:274] [51854] (2 PDB entries)
1. Domains for 1bdm:
  1. Domain d1bdma1: 1bdm A:0-154 [30137]
    Other proteins in same PDB: d1bdma2, d1bdmb2
  2. Domain d1bdmb1: 1bdm B:0-154 [30138]
    Other proteins in same PDB: d1bdma2, d1bdmb2
    complexed with nax; mutant
2. Domains for 1bmd:
  1. Domain d1bmda1: 1bmd A:0-154 [30139]
    Other proteins in same PDB: d1bmda2, d1bmdb2
  2. Domain d1bmdb1: 1bmd B:0-154 [30140]
    Other proteins in same PDB: d1bmda2, d1bmdb2
    complexed with nad
Thermus thermophilus [TaxId:274] [82300] (5 PDB entries)
identical sequence to that from the Thermus flavus enzyme
1. Domains for 1iz9:
  1. Domain d1iz9a1: 1iz9 A:1-154 [76984]
    Other proteins in same PDB: d1iz9a2, d1iz9b2
  2. Domain d1iz9b1: 1iz9 B:1-154 [76986]
    Other proteins in same PDB: d1iz9a2, d1iz9b2
2. Domains for 1wze:
  1. Domain d1wzea1: 1wze A:0-153 [121495]
    Other proteins in same PDB: d1wzea2, d1wzeb2
    automatically matched to d1iz9a1
    complexed with nad; mutant
  2. Domain d1wzeb1: 1wze B:0-153 [121497]
    Other proteins in same PDB: d1wzea2, d1wzeb2
    automatically matched to d1iz9a1
    complexed with nad; mutant
3. Domains for 1wzi:
  1. Domain d1wzia1: 1wzi A:0-153 [121503]
    Other proteins in same PDB: d1wzia2, d1wzib2
    automatically matched to d1iz9a1
    complexed with ndp; mutant
  2. Domain d1wzib1: 1wzi B:0-153 [121505]
    Other proteins in same PDB: d1wzia2, d1wzib2
    automatically matched to d1iz9a1
    complexed with ndp; mutant
4. Domains for 1y7t:
  1. Domain d1y7ta1: 1y7t A:0-153 [122718]
    Other proteins in same PDB: d1y7ta2, d1y7tb2
    automatically matched to d1iz9a1
    complexed with ndp, trs
  2. Domain d1y7tb1: 1y7t B:0-153 [122720]
    Other proteins in same PDB: d1y7ta2, d1y7tb2
    automatically matched to d1iz9a1
    complexed with ndp, trs
5. Domains for 2cvq:
  1. Domain d2cvqa1: 2cvq A:0-153 [130885]
    Other proteins in same PDB: d2cvqa2, d2cvqb2
    automatically matched to d1iz9a1
    complexed with nap, trs
  2. Domain d2cvqb1: 2cvq B:0-153 [130887]
    Other proteins in same PDB: d2cvqa2, d2cvqb2
    automatically matched to d1iz9a1
    complexed with nap, trs

More info for Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like

Timeline for Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like:

Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like first appeared (with stable ids) in SCOP 1.55, called Protein Malate dehydrogenase from c.2.1.5: Lactate & malate dehydrogenases, N-terminal domain
Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like appears in SCOP 1.71
Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like appears in SCOP 1.75
Protein Malate dehydrogenase from c.2.1.5: LDH N-terminal domain-like appears in the current release, SCOPe 2.08