Lineage for Protein: D-xylose isomerase

  1. Root: SCOPe 2.07
  2. 2413226Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2413227Fold c.1: TIM beta/alpha-barrel [51350] (33 superfamilies)
    contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
    the first seven superfamilies have similar phosphate-binding sites
  4. 2424564Superfamily c.1.15: Xylose isomerase-like [51658] (8 families) (S)
    different families share similar but non-identical metal-binding sites
  5. 2424615Family c.1.15.3: Xylose isomerase [51665] (2 protein domains)
  6. 2424616Protein D-xylose isomerase [51666] (13 species)

Species:

  1. 2424617Actinoplanes missouriensis [TaxId:1866] [51673] (14 PDB entries)
    1. Domains for 1bhw:
      1. 2424670Domain d1bhwa_: 1bhw A: [29525]
      2. 2424671Domain d1bhwb_: 1bhw B: [29526]
      3. 2424672Domain d1bhwc_: 1bhw C: [29527]
      4. 2424673Domain d1bhwd_: 1bhw D: [29528]
    2. Domains for 1xim:
      1. 2424618Domain d1xima_: 1xim A: [29473]
        complexed with co, xyl
      2. 2424619Domain d1ximb_: 1xim B: [29474]
        complexed with co, xyl
      3. 2424620Domain d1ximc_: 1xim C: [29475]
        complexed with co, xyl
      4. 2424621Domain d1ximd_: 1xim D: [29476]
        complexed with co, xyl
    3. Domains for 1xin:
      1. 2424646Domain d1xina_: 1xin A: [29513]
        complexed with mg, xyl
      2. 2424647Domain d1xinb_: 1xin B: [29514]
        complexed with mg, xyl
      3. 2424648Domain d1xinc_: 1xin C: [29515]
        complexed with mg, xyl
      4. 2424649Domain d1xind_: 1xin D: [29516]
        complexed with mg, xyl
    4. Domains for 2xim:
      1. 2424638Domain d2xima_: 2xim A: [29497]
        complexed with mg, xyl
      2. 2424639Domain d2ximb_: 2xim B: [29498]
        complexed with mg, xyl
      3. 2424640Domain d2ximc_: 2xim C: [29499]
        complexed with mg, xyl
      4. 2424641Domain d2ximd_: 2xim D: [29500]
        complexed with mg, xyl
    5. Domains for 2xin:
      1. 2424642Domain d2xina_: 2xin A: [29493]
        complexed with co, sor
      2. 2424643Domain d2xinb_: 2xin B: [29494]
        complexed with co, sor
      3. 2424644Domain d2xinc_: 2xin C: [29495]
        complexed with co, sor
      4. 2424645Domain d2xind_: 2xin D: [29496]
        complexed with co, sor
    6. Domains for 3xim:
      1. 2424622Domain d3xima_: 3xim A: [29477]
        complexed with co, sor
      2. 2424623Domain d3ximb_: 3xim B: [29478]
        complexed with co, sor
      3. 2424624Domain d3ximc_: 3xim C: [29479]
        complexed with co, sor
      4. 2424625Domain d3ximd_: 3xim D: [29480]
        complexed with co, sor
    7. Domains for 3xin:
      1. 2424630Domain d3xina_: 3xin A: [29489]
      2. 2424631Domain d3xinb_: 3xin B: [29490]
      3. 2424632Domain d3xinc_: 3xin C: [29491]
      4. 2424633Domain d3xind_: 3xin D: [29492]
    8. Domains for 4xim:
      1. 2424634Domain d4xima_: 4xim A: [29485]
        complexed with co
      2. 2424635Domain d4ximb_: 4xim B: [29486]
        complexed with co
      3. 2424636Domain d4ximc_: 4xim C: [29487]
        complexed with co
      4. 2424637Domain d4ximd_: 4xim D: [29488]
        complexed with co
    9. Domains for 5xim:
      1. 2424666Domain d5xima_: 5xim A: [29521]
        complexed with mg, sor
      2. 2424667Domain d5ximb_: 5xim B: [29522]
        complexed with mg, sor
      3. 2424668Domain d5ximc_: 5xim C: [29523]
        complexed with mg, sor
      4. 2424669Domain d5ximd_: 5xim D: [29524]
        complexed with mg, sor
    10. Domains for 5xin:
      1. 2424626Domain d5xina_: 5xin A: [29481]
        complexed with mg, xls
      2. 2424627Domain d5xinb_: 5xin B: [29482]
        complexed with mg, xls
      3. 2424628Domain d5xinc_: 5xin C: [29483]
        complexed with mg, xls
      4. 2424629Domain d5xind_: 5xin D: [29484]
        complexed with mg, xls
    11. Domains for 6xim:
      1. 2424662Domain d6xima_: 6xim A: [29517]
        complexed with mg, xls
      2. 2424663Domain d6ximb_: 6xim B: [29518]
        complexed with mg, xls
      3. 2424664Domain d6ximc_: 6xim C: [29519]
        complexed with mg, xls
      4. 2424665Domain d6ximd_: 6xim D: [29520]
        complexed with mg, xls
    12. Domains for 7xim:
      1. 2424650Domain d7xima_: 7xim A: [29501]
      2. 2424651Domain d7ximb_: 7xim B: [29502]
      3. 2424652Domain d7ximc_: 7xim C: [29503]
      4. 2424653Domain d7ximd_: 7xim D: [29504]
    13. Domains for 8xim:
      1. 2424658Domain d8xima_: 8xim A: [29509]
        complexed with mg, xls
      2. 2424659Domain d8ximb_: 8xim B: [29510]
        complexed with mg, xls
      3. 2424660Domain d8ximc_: 8xim C: [29511]
        complexed with mg, xls
      4. 2424661Domain d8ximd_: 8xim D: [29512]
        complexed with mg, xls
    14. Domains for 9xim:
      1. 2424654Domain d9xima_: 9xim A: [29505]
        complexed with mn, xls
      2. 2424655Domain d9ximb_: 9xim B: [29506]
        complexed with mn, xls
      3. 2424656Domain d9ximc_: 9xim C: [29507]
        complexed with mn, xls
      4. 2424657Domain d9ximd_: 9xim D: [29508]
        complexed with mn, xls
  2. 2424674Arthrobacter, strain b3728 [TaxId:1663] [51672] (17 PDB entries)
    1. Domains for 1did:
      1. 2424681Domain d1dida_: 1did A: [29459]
        complexed with dig, mn
      2. 2424682Domain d1didb_: 1did B: [29460]
        complexed with dig, mn
    2. Domains for 1die:
      1. 2424691Domain d1diea_: 1die A: [29443]
        complexed with mg, noj
      2. 2424692Domain d1dieb_: 1die B: [29444]
        complexed with mg, noj
    3. Domains for 1xla:
      1. 2424679Domain d1xlaa_: 1xla A: [29445]
      2. 2424680Domain d1xlab_: 1xla B: [29446]
    4. Domains for 1xlb:
      1. 2424697Domain d1xlba_: 1xlb A: [29465]
        complexed with mg
      2. 2424698Domain d1xlbb_: 1xlb B: [29466]
        complexed with mg
    5. Domains for 1xlc:
      1. 2424685Domain d1xlca_: 1xlc A: [29447]
        complexed with mg, xyl
      2. 2424686Domain d1xlcb_: 1xlc B: [29448]
        complexed with mg, xyl
    6. Domains for 1xld:
      1. 2424689Domain d1xlda_: 1xld A: [29449]
        complexed with mn, xyl
      2. 2424690Domain d1xldb_: 1xld B: [29450]
        complexed with mn, xyl
    7. Domains for 1xle:
      1. 2424707Domain d1xlea_: 1xle A: [29471]
        complexed with mn
      2. 2424708Domain d1xleb_: 1xle B: [29472]
        complexed with mn
    8. Domains for 1xlf:
      1. 2424693Domain d1xlfa_: 1xlf A: [29451]
        complexed with gco, mn
      2. 2424694Domain d1xlfb_: 1xlf B: [29452]
        complexed with gco, mn
    9. Domains for 1xlg:
      1. 2424695Domain d1xlga_: 1xlg A: [29461]
        complexed with al, mg, xyl
      2. 2424696Domain d1xlgb_: 1xlg B: [29462]
        complexed with al, mg, xyl
    10. Domains for 1xlh:
      1. 2424687Domain d1xlha_: 1xlh A: [29453]
        complexed with al
      2. 2424688Domain d1xlhb_: 1xlh B: [29454]
        complexed with al
    11. Domains for 1xli:
      1. 2424683Domain d1xlia_: 1xli A: [29455]
        complexed with glt, mn
      2. 2424684Domain d1xlib_: 1xli B: [29456]
        complexed with glt, mn
    12. Domains for 1xlj:
      1. 2424699Domain d1xlja_: 1xlj A: [29463]
        complexed with mn, xyl
      2. 2424700Domain d1xljb_: 1xlj B: [29464]
        complexed with mn, xyl
    13. Domains for 1xlk:
      1. 2424703Domain d1xlka_: 1xlk A: [29469]
        complexed with mn
      2. 2424704Domain d1xlkb_: 1xlk B: [29470]
        complexed with mn
    14. Domains for 1xll:
      1. 2424701Domain d1xlla_: 1xll A: [29467]
        complexed with zn
      2. 2424702Domain d1xllb_: 1xll B: [29468]
        complexed with zn
    15. Domains for 1xlm:
      1. 2424675Domain d1xlma_: 1xlm A: [29441]
        complexed with al, xyl; mutant
      2. 2424676Domain d1xlmb_: 1xlm B: [29442]
        complexed with al, xyl; mutant
    16. Domains for 4xia:
      1. 2424677Domain d4xiaa_: 4xia A: [29439]
        complexed with mg, sor
      2. 2424678Domain d4xiab_: 4xia B: [29440]
        complexed with mg, sor
    17. Domains for 5xia:
      1. 2424705Domain d5xiaa_: 5xia A: [29457]
        complexed with mg, xyl
      2. 2424706Domain d5xiab_: 5xia B: [29458]
        complexed with mg, xyl
  3. 2424709Bacillus stearothermophilus [TaxId:1422] [51675] (1 PDB entry)
  4. 2424714Clostridium thermosulfurogenes, also known as Thermoanaerobacter thermosulfurigenes [TaxId:33950] [51674] (1 PDB entry)
  5. 2424719Streptomyces albus [TaxId:1888] [51667] (1 PDB entry)
  6. 2424721Streptomyces diastaticus, M1033 [TaxId:1956] [51671] (2 PDB entries)
    1. Domain for 1clk:
    2. Domains for 1qt1:
      1. 2424722Domain d1qt1a_: 1qt1 A: [29436]
        complexed with co
      2. 2424723Domain d1qt1b_: 1qt1 B: [29437]
        complexed with co
  7. 2424725Streptomyces murinus [TaxId:33900] [51668] (1 PDB entry)
  8. 2424728Streptomyces olivochromogenes [TaxId:1963] [51669] (9 PDB entries)
    1. Domain for 1muw:
      • 2424729Domain d1muwa_: 1muw A: [79495]
        atomic resolution structure
        complexed with mg, mn, oh
    2. Domain for 1s5m:
    3. Domain for 1s5n:
    4. Domains for 1xya:
      1. 2424738Domain d1xyaa_: 1xya A: [29411]
        complexed with mg, oh
      2. 2424739Domain d1xyab_: 1xya B: [29412]
        complexed with mg, oh
    5. Domains for 1xyb:
      1. 2424740Domain d1xyba_: 1xyb A: [29417]
        complexed with glo, mg
      2. 2424741Domain d1xybb_: 1xyb B: [29418]
        complexed with glo, mg
    6. Domains for 1xyc:
      1. 2424742Domain d1xyca_: 1xyc A: [29419]
        complexed with 3mf, mg
      2. 2424743Domain d1xycb_: 1xyc B: [29420]
        complexed with 3mf, mg
    7. Domains for 1xyl:
      1. 2424734Domain d1xyla_: 1xyl A: [29413]
        complexed with mg, oh
      2. 2424735Domain d1xylb_: 1xyl B: [29414]
        complexed with mg, oh
    8. Domains for 1xym:
      1. 2424736Domain d1xyma_: 1xym A: [29415]
        complexed with glo, mg, oh
      2. 2424737Domain d1xymb_: 1xym B: [29416]
        complexed with glo, mg, oh
    9. Domains for 2gyi:
      1. 2424732Domain d2gyia_: 2gyi A: [29409]
        complexed with hya, mg
      2. 2424733Domain d2gyib_: 2gyi B: [29410]
        complexed with hya, mg
  9. 2424744Streptomyces rubiginosus [TaxId:1929] [51670] (52 PDB entries)
    1. Domain for 1gw9:
    2. Domain for 1mnz:
      • 2424745Domain d1mnza_: 1mnz A: [79328]
        atomic resolution structure
        complexed with ca, mg, mrd, trs
    3. Domain for 1n1w:
    4. Domains for 1o1h:
      1. 2424751Domain d1o1ha_: 1o1h A: [81044]
        complexed with ca, cl, kr, mg, mpd, trs
      2. 2424752Domain d1o1hb_: 1o1h B: [81045]
        complexed with ca, cl, kr, mg, mpd, trs
    5. Domains for 1oad:
      1. 2424757Domain d1oada_: 1oad A: [81253]
        complexed with mg, mn, mpd, mqd, mrd, trs
      2. 2424758Domain d1oadb_: 1oad B: [81254]
        complexed with mg, mn, mpd, mqd, mrd, trs
    6. Domain for 1xib:
    7. Domain for 1xic:
    8. Domain for 1xid:
    9. Domain for 1xie:
    10. Domain for 1xif:
    11. Domain for 1xig:
    12. Domain for 1xih:
    13. Domain for 1xii:
    14. Domain for 1xij:
    15. Domain for 1xis:
    16. Domain for 2xis:
    17. Domain for 3kbj:
    18. Domain for 3kbm:
    19. Domain for 3kbn:
    20. Domain for 3kbs:
    21. Domain for 3kbv:
    22. Domain for 3kbw:
    23. Domain for 3kcj:
    24. Domain for 3kcl:
    25. Domain for 3kco:
    26. Domain for 3xis:
    27. Domain for 4a8n:
    28. Domain for 4e3v:
    29. Domain for 4j4k:
    30. Domain for 4lnc:
    31. Domain for 4qdp:
    32. Domain for 4qdw:
    33. Domain for 4qe1:
    34. Domain for 4qe4:
    35. Domain for 4qe5:
    36. Domain for 4qee:
    37. Domain for 4qeh:
    38. Domains for 4us6:
      1. 2424755Domain d4us6a_: 4us6 A: [272728]
        automated match to d1mnza_
        complexed with ca, gol, mg, na
      2. 2424756Domain d4us6b_: 4us6 B: [272727]
        automated match to d1mnza_
        complexed with ca, gol, mg, na
    39. Domain for 4w4q:
    40. Domain for 4xis:
    41. Domains for 4zb0:
      1. 2424798Domain d4zb0a_: 4zb0 A: [312335]
        automated match to d4xisa_
        complexed with fru, glc, mn
      2. 2424799Domain d4zb0b_: 4zb0 B: [312351]
        automated match to d4xisa_
        complexed with fru, glc, mn
    42. Domain for 4zb2:
    43. Domain for 4zb5:
    44. Domains for 4zbc:
      1. 2424796Domain d4zbca1: 4zbc A:2-387 [312317]
        Other proteins in same PDB: d4zbca2, d4zbcb2
        automated match to d1mnza_
        complexed with fru, glc, mn
      2. 2424797Domain d4zbcb1: 4zbc B:2-387 [312314]
        Other proteins in same PDB: d4zbca2, d4zbcb2
        automated match to d1mnza_
        complexed with fru, glc, mn
    45. Domain for 5avh:
    46. Domains for 5avn:
      1. 2424748Domain d5avna_: 5avn A: [274681]
        automated match to d4xisa_
        complexed with ca, mn, so4
      2. 2424749Domain d5avnb_: 5avn B: [274679]
        automated match to d4xisa_
        complexed with ca, mn, so4
    47. Domain for 5i7g:
    48. Domain for 5vr0:
    49. Domain for 5y4i:
    50. Domain for 5y4j:
    51. Domain for 8xia:
    52. Domain for 9xia:
  10. 2424802Streptomyces sp. [TaxId:253732] [196714] (2 PDB entries)
    1. Domains for 4hhl:
      1. 2424803Domain d4hhla_: 4hhl A: [196715]
        automated match to d1dxia_
        complexed with co, edo, mg
      2. 2424804Domain d4hhlb_: 4hhl B: [202434]
        automated match to d4hhla_
        complexed with co, edo, mg
    2. Domains for 4hhm:
      1. 2424805Domain d4hhma_: 4hhm A: [202435]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      2. 2424806Domain d4hhmb_: 4hhm B: [202436]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      3. 2424807Domain d4hhmc_: 4hhm C: [202437]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      4. 2424808Domain d4hhmd_: 4hhm D: [202438]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      5. 2424809Domain d4hhme_: 4hhm E: [202439]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      6. 2424810Domain d4hhmf_: 4hhm F: [202440]
        automated match to d4hhmg_
        complexed with co, mg; mutant
      7. 2424811Domain d4hhmg_: 4hhm G: [196716]
        automated match to d1dxia_
        complexed with co, mg; mutant
      8. 2424812Domain d4hhmh_: 4hhm H: [202441]
        automated match to d4hhmg_
        complexed with co, mg; mutant
  11. 2424813Thermotoga neapolitana [TaxId:2337] [51676] (1 PDB entry)
  12. 2424816Thermus aquaticus, subsp. Caldophilus [TaxId:271] [51677] (1 PDB entry)
  13. 2424821Thermus aquaticus, subsp. Thermophilus [TaxId:271] [51678] (1 PDB entry)

More info for Protein D-xylose isomerase from c.1.15.3: Xylose isomerase

Timeline for Protein D-xylose isomerase from c.1.15.3: Xylose isomerase: