Structural Classification of Proteins
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Superfamily: Metallo-dependent hydrolases

the beta-sheet barrel is similarly distorted and capped by a C-terminal helix
has transition metal ions bound inside the barrel
link to SUPERFAMILY database - Superfamily

Lineage:

  1. Root: scop
  2. Class: Alpha and beta proteins (a/b) [51349]
    Mainly parallel beta sheets (beta-alpha-beta units)
  3. Fold: TIM beta/alpha-barrel [51350]
    contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
    the first seven superfamilies have similar phosphate-binding sites
  4. Superfamily: Metallo-dependent hydrolases [51556]
    the beta-sheet barrel is similarly distorted and capped by a C-terminal helix
    has transition metal ions bound inside the barrel
    link to SUPERFAMILY database - Superfamily

Families:

  1. Adenosine/AMP deaminase [51557] (4)
    1. Adenosine deaminase (ADA) [51558]
      Common fold covers the whole protein structure
      1. Mouse (Mus musculus) [TaxId: 10090] [51559] (8) picpic
      2. Cow (Bos taurus) [TaxId: 9913] [82257] (20) picpic
        SQ P56658 3-350 ! SQ P56658
      3. Plasmodium yoelii [TaxId: 5861] [141799] (2) picpic
        SQ Q7RMV2 8-364
    2. AMP deaminase (AMPD), catalytic domain [141800]
      elaborated fold with additional structures
      1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [141801] (1) picpic
        SQ O80452 212-839
  2. Dihydroorotase [63917] (1)
    1. Dihydroorotase [63918]
      1. Escherichia coli [TaxId: 562] [63919] (9) picpic
  3. Cytosine deaminase catalytic domain [69390] (1)
    1. Cytosine deaminase catalytic domain [69391]
      1. Escherichia coli [TaxId: 562] [69392] (8) picpic
        SQ P25524
  4. alpha-subunit of urease, catalytic domain [51560] (3)
    1. alpha-subunit of urease, catalytic domain [51561]
      1. Klebsiella aerogenes [TaxId: 28451] [51562] (27) picpic
      2. Bacillus pasteurii [TaxId: 1474] [51563] (6) picpic
      3. Helicobacter pylori [TaxId: 210] [69393] (2) picpic
  5. Hydantoinase (dihydropyrimidinase), catalytic domain [75073] (9)
    1. D-hydantoinase [75074]
      1. Thermus sp. [TaxId: 275] [75075] (2) picpic
      2. Bacillus stearothermophilus [TaxId: 1422] [75076] (1) picpic
      3. Burkholderia pickettii [TaxId: 329] [89488] (1) picpic
      4. Bacillus sp. AR9 [TaxId: 301298] [141802] (2) picpic
        SQ Q5DLU2 2-460
    2. L-hydantoinase [75077]
      1. Arthrobacter aurescens [TaxId: 43663] [75078] (1) picpic
    3. Dihydropyrimidinase related protein-1 [102084]
      1. Mouse (Mus musculus) [TaxId: 10090] [102085] (1) picpic
    4. Two-domain dihydroorotase [141803]
      1. Aquifex aeolicus [TaxId: 63363] [141804] (3) picpic
        SQ O66990 56-365
    5. Dihydropyrimidine amidohydrolase Pyd2 [141805]
      1. Yeast (Saccharomyces kluyveri) [TaxId: 4934] [141806] (12) picpic
        SQ Q9P903 57-440
      2. Dictyostelium discoideum [TaxId: 44689] [141807] (1) picpic
        SQ Q86LT2 60-393
  6. SAH/MTA deaminase-like [82258] (5)
    1. Hypothetical protein TM0936, probable catalytic domain [82259]
      1. Thermotoga maritima [TaxId: 2336] [82260] (3) picpic
    2. Hypothetical protein GOS_1943094 [159389]
      1. Environmental samples [159390] (1) picpic
    3. Guanine deaminase [159391]
      1. Clostridium acetobutylicum [TaxId: 1488] [159392] (2) picpic
        SQ Q97MB6 64-373
        CAC0282
      2. Bradyrhizobium japonicum [TaxId: 375] [159393] (1) picpic
        SQ Q89NG0 71-395
        Blr3880
      3. Human (Homo sapiens) [TaxId: 9606] [159394] (1) picpic
        SQ Q9Y2T3 76-388
  7. Isoaspartyl dipeptidase, catalytic domain [89489] (1)
    1. Isoaspartyl dipeptidase, catalytic domain [89490]
      1. Escherichia coli [TaxId: 562] [89491] (5) picpic
        SQ P39377
  8. N-acetylglucosamine-6-phosphate deacetylase, NagA, catalytic domain [82261] (3)
    1. N-acetylglucosamine-6-phosphate deacetylase, NagA, catalytic domain [82262]
      1. Bacillus subtilis [TaxId: 1423] [102086] (1) picpic
      2. Thermotoga maritima [TaxId: 2336] [82263] (1) picpic
        TM0814
      3. Escherichia coli [TaxId: 562] [141808] (10) picpic
        SQ P0AF18 54-350
  9. D-aminoacylase, catalytic domain [82264] (1)
    1. N-acyl-D-aminoacid amidohydrolase, catalytic domain [82265]
      contains small a/b subdomain inserted after strand 7; unusual for the superfamily metal coordination by Cys
      1. Alcaligenes faecalis [TaxId: 511] [82266] (8) picpic
  10. TatD Mg-dependent DNase-like [82267] (4)
    1. Hypothetical protein TM0667 [82268]
      1. Thermotoga maritima [TaxId: 2336] [82269] (1) picpic
    2. Putative deoxyribonuclease YcfH [141809]
      1. Escherichia coli [TaxId: 562] [141810] (2) picpic
        SQ P0AFQ7 1-265
    3. Deoxyribonuclease TatD (MttC) [141811]
      1. Escherichia coli [TaxId: 562] [141812] (1) picpic
        SQ P27859 1-260
    4. Putative deoxyribonuclease YjjV [141813]
      1. Escherichia coli [TaxId: 562] [141814] (1) picpic
        SQ P39408 1-259
  11. Phosphotriesterase-like [51564] (4)
    1. Phosphotriesterase (parathion hydrolase, PTE) [51565]
      1. Pseudomonas diminuta [TaxId: 293] [51566] (10) picpic
        SQ P0A434 30-365
      2. Flavobacterium sp. atcc 27551 [TaxId: 74567] [102087] (2) picpic
        identical sequence to the Pseudomonas diminuta PTE
      3. Agrobacterium tumefaciens [TaxId: 358] [141815] (3) picpic
        SQ Q93LD7 32-360
    2. Phosphotriesterase homology protein [51567]
      1. Escherichia coli [TaxId: 562] [51568] (1) picpic
  12. Renal dipeptidase [75079] (1)
    1. Renal dipeptidase [75080]
      1. Human (Homo sapiens) [TaxId: 9606] [75081] (2) picpic
  13. Uronate isomerase-like [75082] (2)
    contains all-alpha subdomain inserted after the first strand
    1. Uronate isomerase TM0064 [75083]
      1. Thermotoga maritima [TaxId: 2336] [75084] (1) picpic
    2. Uncharacterized protein BH0493 [159395]
      1. Bacillus halodurans [TaxId: 86665] [159396] (13) picpic
        SQ Q9KFI6 1-423
  14. Adenine deaminase-like [141816] (1)
    1. Putative adenine deaminase EF0837 [141817]
      1. Enterococcus faecalis [TaxId: 1351] [141818] (1) picpic
        SQ Q837K0 53-319
  15. PP1699/LP2961-like [141819] (5)
    Pfam 04909; Amidohydrolase; stand-alone domain
    1. Putative 2-pyrone-4,6-dicarboxylic acid hydrolase PP1699 [141820]
      1. Pseudomonas putida [TaxId: 303] [141821] (2) picpic
        SQ Q88M75 10-280
    2. Thermophilic reversible gamma-resorcylate decarboxylase [141822]
      1. Rhizobium sp. MTP-10005 [TaxId: 267998] [141823] (12) picpic
        SQ Q60GU1 1-325
    3. 2-amino-3-carboxymuconate 6-semialdehyde decarboxylase NbaD [141824]
      1. Pseudomonas fluorescens [TaxId: 294] [141825] (4) picpic
        SQ Q83V25 3-333
    4. 4-oxalomesaconate hydratase LigJ [141826]
      1. Rhodopseudomonas palustris [TaxId: 1076] [141827] (2) picpic
        SQ Q6N0R4 1-342
    5. Putative amidohydrolase LP2961 [141828]
      1. Lactobacillus plantarum [TaxId: 1590] [141829] (2) picpic
        SQ Q88TJ2 2-307
  16. DR0824-like [159397] (1)
    1. Hypothetical protein DR0824 [159398]
      predicted isoguanine deaminase/xanthine hydrolase
      1. Deinococcus radiodurans [TaxId: 1299] [159399] (1) picpic
        SQ Q9RW45 91-398
  17. Imidazolonepropionase-like [159400] (4)
    1. Uncharacterized protein BL1453 [159401]
      Possible prolidase
      1. Bifidobacterium longum [TaxId: 216816] [159402] (1) picpic
        SQ Q8G4D5 69-392
    2. Probable 4-imidazolone-5-propanoate amidohydrolase GOS_1928421 [159403]
      1. Environmental samples [159404] (2) picpic
        marine metagenome
    3. Imidazolonepropionase [159405]
      1. Bacillus subtilis [TaxId: 1423] [159406] (4) picpic
        SQ P42084 74-373
      2. Agrobacterium tumefaciens [TaxId: 358] [159407] (4) picpic
        SQ Q8U8Z6 78-378
  18. Zn-dependent arginine carboxypeptidase-like [159408] (3)
    1. Xaa-Pro dipeptidase [159409]
      1. Alteromonas macleodii [TaxId: 28108] [159410] (2) picpic
    2. Zn-dependent arginine carboxypeptidase [159411]
      1. Unidentified organism [TaxId: 32644] [159412] (16) picpic
    3. Uncharacterized protein EAJ56179 [159413]
      1. Unidentified organism [TaxId: 32644] [159414] (8) picpic
        94% identity to the Burkholderia phytofirmans ortholog Bphyt_2089 (SQ B2T4I1)
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MRC site 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