SCOPe 2.08: Protein: Phosphoglycerate dehydrogenase

Lineage for Protein: Phosphoglycerate dehydrogenase

Root: SCOPe 2.08
Class c: Alpha and beta proteins (a/b) [51349] (148 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] (13 families)
Family c.2.1.4: Formate/glycerate dehydrogenases, NAD-domain [51830] (10 proteins)
this domain interrupts the other domain which defines family
Protein Phosphoglycerate dehydrogenase [51839] (2 species)
has additional C-terminal domain of the ferredoxin fold

Species:

Escherichia coli [TaxId:562] [51840] (7 PDB entries)

Domains for 1psd:
1. Domain d1psda1: 1psd A:108-295 [30097]
  Other proteins in same PDB: d1psda2, d1psda3, d1psdb2, d1psdb3
  complexed with nad, ser
2. Domain d1psdb1: 1psd B:108-295 [30098]
  Other proteins in same PDB: d1psda2, d1psda3, d1psdb2, d1psdb3
  complexed with nad, ser
Domains for 1sc6:
1. Domain d1sc6a1: 1sc6 A:108-295 [118932]
  Other proteins in same PDB: d1sc6a2, d1sc6a3, d1sc6b2, d1sc6b3, d1sc6c2, d1sc6c3, d1sc6d2, d1sc6d3
  automatically matched to d1psda1
  complexed with nad
2. Domain d1sc6b1: 1sc6 B:108-295 [118935]
  Other proteins in same PDB: d1sc6a2, d1sc6a3, d1sc6b2, d1sc6b3, d1sc6c2, d1sc6c3, d1sc6d2, d1sc6d3
  automatically matched to d1psda1
  complexed with nad
3. Domain d1sc6c1: 1sc6 C:108-291 [118938]
  Other proteins in same PDB: d1sc6a2, d1sc6a3, d1sc6b2, d1sc6b3, d1sc6c2, d1sc6c3, d1sc6d2, d1sc6d3
  automatically matched to d1psda1
  complexed with nad
4. Domain d1sc6d1: 1sc6 D:108-291 [118941]
  Other proteins in same PDB: d1sc6a2, d1sc6a3, d1sc6b2, d1sc6b3, d1sc6c2, d1sc6c3, d1sc6d2, d1sc6d3
  automatically matched to d1psda1
  complexed with nad

Domains for 1yba:

Domain d1ybaa1: 1yba A:108-295 [122872]
Other proteins in same PDB: d1ybaa2, d1ybaa3, d1ybab2, d1ybab3, d1ybac2, d1ybac3, d1ybad2, d1ybad3
automatically matched to d1psda1
complexed with akg, nad, po4, unl

Domain d1ybab1: 1yba B:108-295 [122875]
Other proteins in same PDB: d1ybaa2, d1ybaa3, d1ybab2, d1ybab3, d1ybac2, d1ybac3, d1ybad2, d1ybad3
automatically matched to d1psda1
complexed with akg, nad, po4, unl

Domain d1ybac1: 1yba C:108-295 [122878]
Other proteins in same PDB: d1ybaa2, d1ybaa3, d1ybab2, d1ybab3, d1ybac2, d1ybac3, d1ybad2, d1ybad3
automatically matched to d1psda1
complexed with akg, nad, po4, unl

Domain d1ybad1: 1yba D:108-295 [122881]
Other proteins in same PDB: d1ybaa2, d1ybaa3, d1ybab2, d1ybab3, d1ybac2, d1ybac3, d1ybad2, d1ybad3
automatically matched to d1psda1
complexed with akg, nad, po4, unl

Domains for 2p9c:
1. Domain d2p9ca1: 2p9c A:108-295 [139556]
  Other proteins in same PDB: d2p9ca2, d2p9ca3, d2p9cb2, d2p9cb3
  automatically matched to d1psda1
  complexed with nai, ser; mutant
2. Domain d2p9cb1: 2p9c B:108-295 [139559]
  Other proteins in same PDB: d2p9ca2, d2p9ca3, d2p9cb2, d2p9cb3
  automatically matched to d1psda1
  complexed with nai, ser; mutant

Domains for 2p9e:

Domain d2p9ea1: 2p9e A:108-295 [139562]
Other proteins in same PDB: d2p9ea2, d2p9ea3, d2p9eb2, d2p9eb3, d2p9ec2, d2p9ec3, d2p9ed2, d2p9ed3
automatically matched to d1psda1
complexed with cit, nai, po4, so4; mutant

Domain d2p9eb1: 2p9e B:108-295 [139565]
Other proteins in same PDB: d2p9ea2, d2p9ea3, d2p9eb2, d2p9eb3, d2p9ec2, d2p9ec3, d2p9ed2, d2p9ed3
automatically matched to d1psda1
complexed with cit, nai, po4, so4; mutant

Domain d2p9ec1: 2p9e C:108-295 [139568]
Other proteins in same PDB: d2p9ea2, d2p9ea3, d2p9eb2, d2p9eb3, d2p9ec2, d2p9ec3, d2p9ed2, d2p9ed3
automatically matched to d1psda1
complexed with cit, nai, po4, so4; mutant

Domain d2p9ed1: 2p9e D:108-295 [139571]
Other proteins in same PDB: d2p9ea2, d2p9ea3, d2p9eb2, d2p9eb3, d2p9ec2, d2p9ec3, d2p9ed2, d2p9ed3
automatically matched to d1psda1
complexed with cit, nai, po4, so4; mutant

Domains for 2p9g:
1. Domain d2p9ga1: 2p9g A:108-295 [139574]
  Other proteins in same PDB: d2p9ga2, d2p9ga3, d2p9gb2, d2p9gb3
  automatically matched to d1psda1
  complexed with nai, ser; mutant
2. Domain d2p9gb1: 2p9g B:108-295 [139577]
  Other proteins in same PDB: d2p9ga2, d2p9ga3, d2p9gb2, d2p9gb3
  automatically matched to d1psda1
  complexed with nai, ser; mutant
Domain for 2pa3:
- Domain d2pa3a1: 2pa3 A:108-295 [139638]
  Other proteins in same PDB: d2pa3a2, d2pa3a3
  automatically matched to d1psda1
  complexed with nai, ser; mutant

Mycobacterium tuberculosis [TaxId:1773] [141927] (2 PDB entries)
Uniprot P0A544 98-281
1. Domains for 1ygy:
  1. Domain d1ygya1: 1ygy A:99-282 [123150]
    Other proteins in same PDB: d1ygya2, d1ygya3, d1ygya4, d1ygyb2, d1ygyb3, d1ygyb4
    complexed with tla
  2. Domain d1ygyb1: 1ygy B:99-282 [123154]
    Other proteins in same PDB: d1ygya2, d1ygya3, d1ygya4, d1ygyb2, d1ygyb3, d1ygyb4
    automated match to d1ygya1
    complexed with tla
2. Domains for 3dc2:
  1. Domain d3dc2a2: 3dc2 A:99-282 [209072]
    Other proteins in same PDB: d3dc2a1, d3dc2a3, d3dc2a4, d3dc2b1, d3dc2b3, d3dc2b4
    automated match to d1ygya1
    complexed with ser, tla
  2. Domain d3dc2b2: 3dc2 B:99-282 [209076]
    Other proteins in same PDB: d3dc2a1, d3dc2a3, d3dc2a4, d3dc2b1, d3dc2b3, d3dc2b4
    automated match to d1ygya1
    complexed with ser, tla

More info for Protein Phosphoglycerate dehydrogenase from c.2.1.4: Formate/glycerate dehydrogenases, NAD-domain

Timeline for Protein Phosphoglycerate dehydrogenase from c.2.1.4: Formate/glycerate dehydrogenases, NAD-domain:

Protein Phosphoglycerate dehydrogenase from c.2.1.4: Formate/glycerate dehydrogenases, NAD-domain first appeared (with stable ids) in SCOP 1.55
Protein Phosphoglycerate dehydrogenase from c.2.1.4: Formate/glycerate dehydrogenases, NAD-domain appears in SCOPe 2.07