Fold: Isocitrate/Isopropylmalate dehydrogenase-like

consists of two intertwined (sub)domains related by pseudo dyad; duplication
3 layers: a/b/a; single mixed beta-sheet of 10 strands, order 213A945867 (A=10); strands from 5 to 9 are antiparallel to the rest

Lineage:

1. Root: scop
2. Class: Alpha and beta proteins (a/b) [51349]
   Mainly parallel beta sheets (beta-alpha-beta units)
3. Fold: Isocitrate/Isopropylmalate dehydrogenase-like [53658]
   consists of two intertwined (sub)domains related by pseudo dyad; duplication
   3 layers: a/b/a; single mixed beta-sheet of 10 strands, order 213A945867 (A=10); strands from 5 to 9 are antiparallel to the rest

Superfamilies:

1. Isocitrate/Isopropylmalate dehydrogenase-like [53659] (5)
   the constituent families form similar dimers
   uperfamily
   1. Dimeric isocitrate & isopropylmalate dehydrogenases [53660] (13)
      the active site is between the two identical subunits
      1. 3-isopropylmalate dehydrogenase, IPMDH [53661]
         1. Thermus thermophilus [TaxId: 274] [53662] (14)
            1. 1xaa
               1. chain a [35033]
            2. 1g2u
               mutant
               1. chain a [35036]
            3. 1xab
               1. chain a [35034]
            4. 1idm
               mutant
               1. chain a [35035]
            5. 1gc9
               mutant
               1. chain a [35037]
            6. 1osj
               mutant
               1. chain a [35039]
               2. chain b [35040]
            7. 1wal
               mutant
               1. chain a [35041]
            8. 1hex
               complexed with nad
               1. chain a [35044]
            9. 1gc8
               mutant
               1. chain a [35042]
               2. chain b [35043]
            10. 1ipd
                complexed with so4
                1. chain a [35038]
            11. 1osi
                1. chain a [35047]
                2. chain b [35048]
                3. chain c [35049]
                4. chain d [35050]
            12. 1dr0
                1. chain a [35045]
                2. chain b [35046]
            13. 1dr8
                1. chain a [35051]
                2. chain b [35052]
            14. 1dpz
                1. chain a [35053]
                2. chain b [35054]
         2. Chimera (Thermus thermophilus) and (Bacillus subtilis) [TaxId: 274] [53663] (2)
            1. 1xad
               mutant
               1. chain a [35055]
            2. 1xac
               mutant
               1. chain a [35056]
         3. Bacillus coagulans [TaxId: 1398] [53664] (3)
            1. 2ayq
               1. chain a [35057]
               2. chain b [35058]
            2. 1v53
               automatically matched to d2ayqb_
               1. region a:1-356 [119836]
            3. 1v53
               automatically matched to d2ayqb_
               1. region b:1-356 [119837]
         4. Thiobacillus ferrooxidans [TaxId: 920] [53665] (1)
            1. 1a05
               complexed with ipm, mg
               1. chain a [35059]
               2. chain b [35060]
         5. Salmonella typhimurium [TaxId: 90371] [53666] (1)
            1. 1cnz
               complexed with mn, so4
               1. chain a [35061]
               2. chain b [35062]
         6. Escherichia coli [TaxId: 562] [53667] (1)
            1. 1cm7
               1. chain a [35063]
               2. chain b [35064]
         7. Thermotoga maritima [TaxId: 2336] [110714] (1)
            SQ Q9WZ26
            1. 1vlc
               Structural genomics target
               complexed with cl
               1. chain a [108743]
         8. Sulfolobus tokodaii [TaxId: 111955] [117724] (1)
            SQ P50455
            1. 1wpw
               complexed with mg
               1. chain a [114830]
               2. chain b [114831]
         9. Mycobacterium tuberculosis [TaxId: 1773] [117725] (5)
            SQ P95313
            1. 1w0d
               complexed with so4
               1. chain a [114060]
               2. chain b [114061]
               3. chain c [114062]
               4. chain d [114063]
            2. 2g4o
               automatically matched to d1w0da_
               complexed with cl, so4
               1. region a:1-336 [134604]
            3. 2g4o
               automatically matched to d1w0da_
               complexed with cl, so4
               1. region b:1-336 [134605]
            4. 2g4o
               automatically matched to d1w0da_
               complexed with cl, so4
               1. region c:1-336 [134606]
            5. 2g4o
               automatically matched to d1w0da_
               complexed with cl, so4
               1. region d:1-336 [134607]
      2. Isocitrate dehydrogenase, ICDH [53668]
         1. Escherichia coli [TaxId: 562] [53669] (26)
            1. 1pb1
               complexed with gol, ici, so4
               1. chain a [88014]
            2. 1pb3
               complexed with gol, so4
               1. chain a [88015]
            3. 1iso
               complexed with nad, so4; mutant
               1. chain a [35065]
            4. 1ai3
               complexed with itm, ndo
               1. chain a [35066]
            5. 1ai2
               complexed with ica, nap
               1. chain a [35067]
            6. 1p8f
               complexed with gol, ici, mg, so4
               1. chain a [87943]
            7. 1cw4
               complexed with akg, mn, so4; mutant
               1. chain a [35068]
            8. 1cw1
               complexed with ici, mn, so4; mutant
               1. chain a [35069]
            9. 1sjs
               1. chain a [35071]
            10. 1hj6
                complexed with gol, ipm, mg, nap; mutant
                1. chain a [35070]
            11. 1cw7
                complexed with ici, mg, so4
                1. chain a [35087]
            12. 7icd
                mutant
                1. chain a [35072]
            13. 1grp
                complexed with ict, mg; mutant
                1. chain a [35077]
            14. 9icd
                complexed with nap
                1. chain a [35075]
            15. 8icd
                complexed with ict, mg; mutant
                1. chain a [35076]
            16. 4icd
                complexed with pho
                1. chain a [35074]
            17. 1gro
                complexed with ict, mg; mutant
                1. chain a [35079]
            18. 3icd
                1. chain a [35078]
            19. 5icd
                complexed with ict, mg
                1. chain a [35080]
            20. 1idc
                complexed with mg, oxs; mutant
                1. chain a [35073]
            21. 6icd
                mutant
                1. chain a [35081]
            22. 1bl5
                complexed with akg, mg, nap
                1. chain a [35083]
            23. 1idd
                mutant
                1. chain a [35084]
            24. 1ide
                complexed with ict, mg, nap; mutant
                1. chain a [35082]
            25. 1idf
                mutant
                1. chain a [35086]
            26. 1ika
                complexed with akg, ca
                1. chain a [35085]
         2. Bacillus subtilis [TaxId: 1423] [64171] (1)
            1. 1hqs
               complexed with cit, pgq, pgr
               1. chain a [61154]
               2. chain b [61155]
      3. NADP-dependent isocitrate dehydrogenase [82524]
         1. Pig (Sus scrofa) [TaxId: 9823] [82525] (2)
            1. 1lwd
               complexed with ict, mn, so4
               1. chain a [78265]
               2. chain b [78266]
            2. 1j1w
               complexed with nap
               1. chain a [90772]
               2. chain b [90773]
               3. chain c [90774]
               4. chain d [90775]
         2. Human (Homo sapiens) [TaxId: 9606] [110715] (2)
            SQ O75874
            1. 1t0l
               complexed with ca, ict, nap
               1. chain a [106216]
               2. chain b [106217]
               3. chain c [106218]
               4. chain d [106219]
            2. 1t09
               complexed with nap
               1. chain a [106197]
               2. chain b [106198]
   2. PdxA-like [102656] (2)
      Pfam 04166; contains extra beta-alpha unit between strands 2 and 3; closer relationships to the PlsX-like and phosphotransacetylase families
      1. 4-hydroxythreonine-4-phosphate dehydrogenase PdxA [102657]
         pyridoxal phosphate biosynthetic protein
         1. Escherichia coli [TaxId: 562] [102658] (3)
            1. 1ptm
               complexed with po4, zn
               1. chain a [95104]
               2. chain b [95105]
            2. 1ps6
               complexed with 4tp, zn
               1. chain a [95070]
               2. chain b [95071]
            3. 1ps7
               complexed with zn
               1. chain a [95072]
               2. chain b [95073]
               3. chain c [95074]
               4. chain d [95075]
         2. Salmonella typhimurium [TaxId: 90371] [102659] (1)
            1. 1r8k
               complexed with cl, co, so4
               1. chain a [97240]
               2. chain b [97241]
   3. PlsX-like [102660] (2)
      Pfam 02504; contains extra beta-alpha unit between strands 2 and 3; closer relationships to the PdxA-like and phosphotransacetylase families
      1. Fatty acid/phospholipid synthesis protein PlsX [102661]
         1. Bacillus subtilis [TaxId: 1423] [102662] (1)
            1. 1vi1
               structural genomics
               1. chain a [100724]
               2. chain b [100725]
         2. Enterococcus faecalis [TaxId: 1351] [110716] (1)
            SQ Q82ZE8
            1. 1u7n
               Structural genomics target
               complexed with edo, eoh
               1. chain a [107726]
               2. chain b [107727]
   4. Phosphotransacetylase [102663] (4)
      Pfam 01515; contains extra beta-alpha unit between strands 2 and 3; closer relationships to the PdxA-like and PlsX-like families
      1. Phosphotransacetylase Pta [110717]
         1. Methanosarcina thermophila [TaxId: 2210] [110718] (5)
            SQ P38503
            1. 2af4
               automatically matched to d1qzta_
               complexed with coa
               1. region c:2-333 [126656]
            2. 2af4
               automatically matched to d1qzta_
               complexed with coa
               1. region d:2-332 [126657]
            3. 1qzt
               complexed with so4
               1. chain a [104670]
               2. chain b [104671]
               3. chain c [104672]
               4. chain d [104673]
            4. 2af3
               automatically matched to d1qzta_
               complexed with coa, so4
               1. region c:2-333 [126654]
            5. 2af3
               automatically matched to d1qzta_
               complexed with coa, so4
               1. region d:2-333 [126655]
         2. Streptococcus pyogenes [TaxId: 1314] [102665] (1)
            1. 1r5j
               structural genomics
               1. chain a [97097]
               2. chain b [97098]
         3. Bacillus subtilis [TaxId: 1423] [117726] (2)
            SQ P39646
            1. 1xco
               Structural genomics target
               complexed with so4, uvw
               1. chain a [115128]
               2. chain b [115129]
               3. chain c [115130]
               4. chain d [115131]
               5. chain e [115132]
               6. chain f [115133]
            2. 1td9
               Structural genomics target
               complexed with so4
               1. chain a [112391]
               2. chain b [112392]
               3. chain c [112393]
               4. chain d [112394]
               5. chain e [112395]
               6. chain f [112396]
      2. Ethanolamine utilization protein EutD [117727]
         1. Escherichia coli [TaxId: 562] [117728] (1)
            SQ P77218 2-323
            1. 1vmi
               Structural genomics target
               complexed with gol
               1. chain a [113678]
   5. Monomeric isocitrate dehydrogenase [82526] (1)
      the active site is contained within one subunit between the canonical ICDH fold and a large insert domain that itself is a probable rudiment form of ICDH fold resulted from duplication, domain swapping and deletion
      1. Monomeric isocitrate dehydrogenase [82527]
         1. Azotobacter vinelandii [TaxId: 354] [82528] (1)
            the insert region spans residues 150-404
            1. 1itw
               complexed with ici, mn
               1. chain a [76793]
               2. chain b [76794]
               3. chain c [76795]
               4. chain d [76796]

Generated from scop database 1.75 with scopm 1.101 on Wed Jun 3 10:42:06 2009 Copyright © 1994-2009 The scop authors / scop@mrc-lmb.cam.ac.uk