Lineage for Protein: automated matches

  1. Root: SCOPe 2.06
  2. 2078559Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2122050Fold c.55: Ribonuclease H-like motif [53066] (7 superfamilies)
    3 layers: a/b/a; mixed beta-sheet of 5 strands, order 32145; strand 2 is antiparallel to the rest
  4. 2123751Superfamily c.55.3: Ribonuclease H-like [53098] (15 families) (S)
    consists of one domain of this fold
  5. 2124881Family c.55.3.0: automated matches [191357] (1 protein)
    not a true family
  6. 2124882Protein automated matches [190396] (34 species)
    not a true protein

Species:

  1. 2124883Acinetobacter baumannii [TaxId:470] [276138] (1 PDB entry)
  2. 2124890Archaeoglobus fulgidus [TaxId:2234] [256016] (1 PDB entry)
  3. 2124894Bovine immunodeficiency virus [TaxId:417296] [225970] (2 PDB entries)
    1. Domain for 3kkr:
    2. Domains for 3kks:
      1. 2124895Domain d3kksa1: 3kks A:60-206 [212402]
        Other proteins in same PDB: d3kksa2, d3kksb2
        automated match to d4jlha_
        complexed with act, gol
      2. 2124896Domain d3kksb1: 3kks B:60-208 [212403]
        Other proteins in same PDB: d3kksa2, d3kksb2
        automated match to d4jlha_
        complexed with act, gol
  4. 2124898Chlorobaculum tepidum [TaxId:1097] [225664] (1 PDB entry)
  5. 2124901Feline immunodeficiency virus [TaxId:11674] [259692] (1 PDB entry)
  6. 2124903Fission yeast (Schizosaccharomyces pombe) [TaxId:4896] [255540] (3 PDB entries)
    1. Domain for 2p51:
    2. Domain for 3g0z:
    3. Domain for 3g10:
  7. 2124907Geobacillus kaustophilus [TaxId:1462] [233272] (8 PDB entries)
    1. Domains for 3pv8:
      1. 2124908Domain d3pv8a1: 3pv8 A:298-468 [233274]
        Other proteins in same PDB: d3pv8a2, d3pv8d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with d3t, mg, so4
      2. 2124909Domain d3pv8d1: 3pv8 D:298-468 [233273]
        Other proteins in same PDB: d3pv8a2, d3pv8d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with d3t, mg, so4
    2. Domains for 3px0:
      1. 2124920Domain d3px0a1: 3px0 A:298-468 [248705]
        Other proteins in same PDB: d3px0a2, d3px0d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dcp, mn, so4
      2. 2124921Domain d3px0d1: 3px0 D:298-468 [248707]
        Other proteins in same PDB: d3px0a2, d3px0d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dcp, mn, so4
    3. Domains for 3px4:
      1. 2124918Domain d3px4a1: 3px4 A:298-468 [248709]
        Other proteins in same PDB: d3px4a2, d3px4d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dct, mg, so4
      2. 2124919Domain d3px4d1: 3px4 D:298-468 [248711]
        Other proteins in same PDB: d3px4a2, d3px4d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dct, mg, so4
    4. Domains for 3px6:
      1. 2124910Domain d3px6a1: 3px6 A:298-468 [248713]
        Other proteins in same PDB: d3px6a2, d3px6d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dct, mn, so4
      2. 2124911Domain d3px6d1: 3px6 D:296-468 [248715]
        Other proteins in same PDB: d3px6a2, d3px6d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dct, mn, so4
    5. Domains for 4dse:
      1. 2124916Domain d4dsea1: 4dse A:297-468 [251537]
        Other proteins in same PDB: d4dsea2, d4dsed2
        automated match to d3pv8d1
        protein/DNA complex; complexed with ctp, so4
      2. 2124917Domain d4dsed1: 4dse D:298-468 [251539]
        Other proteins in same PDB: d4dsea2, d4dsed2
        automated match to d3pv8d1
        protein/DNA complex; complexed with ctp, so4
    6. Domains for 4dsf:
      1. 2124914Domain d4dsfa1: 4dsf A:297-468 [251541]
        Other proteins in same PDB: d4dsfa2, d4dsfd2
        automated match to d3pv8d1
        protein/DNA complex; complexed with ctp, so4
      2. 2124915Domain d4dsfd1: 4dsf D:298-468 [251543]
        Other proteins in same PDB: d4dsfa2, d4dsfd2
        automated match to d3pv8d1
        protein/DNA complex; complexed with ctp, so4
    7. Domains for 4ez6:
      1. 2124912Domain d4ez6a1: 4ez6 A:297-468 [251825]
        Other proteins in same PDB: d4ez6a2, d4ez6d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dg3, mpd, so4
      2. 2124913Domain d4ez6d1: 4ez6 D:297-468 [251827]
        Other proteins in same PDB: d4ez6a2, d4ez6d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with dg3, mpd, so4
    8. Domains for 4ez9:
      1. 2124922Domain d4ez9a1: 4ez9 A:298-468 [251829]
        Other proteins in same PDB: d4ez9a2, d4ez9d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with d3t, mpd, so4
      2. 2124923Domain d4ez9d1: 4ez9 D:298-468 [251831]
        Other proteins in same PDB: d4ez9a2, d4ez9d2
        automated match to d3pv8d1
        protein/DNA complex; complexed with d3t, mpd, so4
  8. 2124924Geobacillus kaustophilus [TaxId:235909] [226399] (6 PDB entries)
    1. Domains for 4dqp:
      1. 2124932Domain d4dqpa1: 4dqp A:297-468 [219946]
        Other proteins in same PDB: d4dqpa2, d4dqpd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with dct, mg, so4
      2. 2124933Domain d4dqpd1: 4dqp D:298-468 [219948]
        Other proteins in same PDB: d4dqpa2, d4dqpd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with dct, mg, so4
    2. Domains for 4dqq:
      1. 2124925Domain d4dqqa1: 4dqq A:297-468 [219950]
        Other proteins in same PDB: d4dqqa2, d4dqqd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with ctp, mes, mg, mpd, so4
      2. 2124926Domain d4dqqd1: 4dqq D:293-468 [219952]
        Other proteins in same PDB: d4dqqa2, d4dqqd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with ctp, mes, mg, mpd, so4
    3. Domains for 4dqr:
      1. 2124934Domain d4dqra1: 4dqr A:297-468 [219954]
        Other proteins in same PDB: d4dqra2, d4dqrd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with ctp, mn, mpd, so4
      2. 2124935Domain d4dqrd1: 4dqr D:298-468 [219956]
        Other proteins in same PDB: d4dqra2, d4dqrd2
        automated match to d1nk4a1
        protein/DNA complex; complexed with ctp, mn, mpd, so4
    4. Domain for 4dqs:
    5. Domains for 4ds4:
      1. 2124928Domain d4ds4a1: 4ds4 A:297-468 [219990]
        Other proteins in same PDB: d4ds4a2, d4ds4d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with so4
      2. 2124929Domain d4ds4d1: 4ds4 D:296-468 [219992]
        Other proteins in same PDB: d4ds4a2, d4ds4d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with so4
    6. Domains for 4ds5:
      1. 2124930Domain d4ds5a1: 4ds5 A:297-468 [219994]
        Other proteins in same PDB: d4ds5a2, d4ds5d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with so4
      2. 2124931Domain d4ds5d1: 4ds5 D:296-468 [219996]
        Other proteins in same PDB: d4ds5a2, d4ds5d2
        automated match to d1nk4a1
        protein/DNA complex; complexed with so4
  9. 2124936Geobacillus sp. [TaxId:129337] [233669] (4 PDB entries)
    1. Domain for 3tan:
    2. Domain for 3tap:
    3. Domain for 3taq:
    4. Domain for 3tar:
  10. 2124941Geobacillus stearothermophilus [TaxId:1422] [255224] (2 PDB entries)
    1. Domain for 2hw3:
    2. Domain for 4o0i:
  11. 2124944Hiv-1 m:b_hxb2r [TaxId:11706] [225268] (21 PDB entries)
    1. Domain for 2opp:
    2. Domain for 2opq:
    3. Domain for 2opr:
    4. Domain for 2ops:
    5. Domain for 2rf2:
    6. Domain for 2ynf:
    7. Domain for 2yng:
    8. Domain for 2ynh:
    9. Domain for 2yni:
    10. Domain for 3c6t:
    11. Domain for 3c6u:
    12. Domain for 3ffi:
    13. Domain for 3i0r:
    14. Domain for 3i0s:
    15. Domain for 3med:
    16. Domain for 3meg:
    17. Domain for 3t19:
    18. Domain for 3t1a:
    19. Domain for 3tam:
    20. Domain for 4kv8:
    21. Domain for 4ncg:
  12. 2124966Human (Homo sapiens) [TaxId:9606] [225370] (6 PDB entries)
    1. Domain for 2qk9:
      • 2124972Domain d2qk9a1: 2qk9 A:136-286 [205832]
        Other proteins in same PDB: d2qk9a2
        automated match to d2zqba_
        protein/DNA complex; protein/RNA complex; complexed with 16d, flc, gol, na, so4; mutant
    2. Domains for 2qkb:
      1. 2124970Domain d2qkba1: 2qkb A:136-284 [205833]
        Other proteins in same PDB: d2qkba2, d2qkbb2
        automated match to d2zqba_
        protein/DNA complex; protein/RNA complex; complexed with edo, so4; mutant
      2. 2124971Domain d2qkbb1: 2qkb B:136-284 [205834]
        Other proteins in same PDB: d2qkba2, d2qkbb2
        automated match to d2zqba_
        protein/DNA complex; protein/RNA complex; complexed with edo, so4; mutant
    3. Domain for 4kre:
    4. Domain for 4krf:
    5. Domain for 4kxt:
    6. Domain for 5w6v:
  13. 2124973Human immunodeficiency virus 1 [TaxId:11676] [225129] (16 PDB entries)
    1. Domain for 2hnd:
    2. Domain for 2hny:
    3. Domain for 2hnz:
    4. Domain for 2i5j:
    5. Domain for 2jle:
    6. Domain for 2vg5:
    7. Domain for 2vg6:
    8. Domain for 2vg7:
    9. Domain for 2zd1:
    10. Domain for 2ze2:
    11. Domain for 3bgr:
    12. Domain for 4kko:
    13. Domain for 4lsl:
    14. Domain for 4mfb:
    15. Domain for 4zhr:
    16. Domain for 5fdl:
  14. 2124989Human immunodeficiency virus type 1 bh10 [TaxId:11678] [225195] (20 PDB entries)
    1. Domain for 2iaj:
    2. Domain for 2ic3:
    3. Domain for 2ykm:
    4. Domain for 2ykn:
    5. Domain for 3dlk:
    6. Domain for 3ig1:
    7. Domain for 3irx:
    8. Domain for 3is9:
    9. Domain for 3qo9:
    10. Domain for 4h4o:
    11. Domain for 4i2p:
    12. Domain for 4i2q:
    13. Domain for 4o44:
    14. Domain for 4o4g:
    15. Domain for 4rw4:
    16. Domain for 4rw6:
    17. Domain for 4rw7:
    18. Domain for 4rw8:
    19. Domain for 4rw9:
    20. Domain for 5hbm:
  15. 2125009Human immunodeficiency virus type 1 group m subtype b (isolate bh10) [TaxId:11678] [275362] (20 PDB entries)
    1. Domain for 5c24:
    2. Domain for 5c25:
    3. Domain for 5cym:
    4. Domain for 5cyq:
    5. Domains for 5j1e:
      1. 2275214Domain d5j1ec2: 5j1e C:430-554 [318515]
        Other proteins in same PDB: d5j1ea1, d5j1eb1, d5j1eb2, d5j1ec1, d5j1ed_
        automated match to d1dloa1
        complexed with 6ft, mg
      2. 2275218Domain d5j1ea2: 5j1e A:430-553 [318519]
        Other proteins in same PDB: d5j1ea1, d5j1eb1, d5j1eb2, d5j1ec1, d5j1ed_
        automated match to d1dloa1
        complexed with 6ft, mg
    6. Domain for 5tep:
    7. Domain for 5ter:
    8. Domain for 5tuq:
    9. Domain for 5tw3:
    10. Domains for 5uv5:
      1. 2294629Domain d5uv5c2: 5uv5 C:430-554 [337930]
        Other proteins in same PDB: d5uv5a1, d5uv5b1, d5uv5b2, d5uv5c1, d5uv5d_
        automated match to d1dloa1
        complexed with mn, y55
      2. 2294635Domain d5uv5a2: 5uv5 A:430-553 [337936]
        Other proteins in same PDB: d5uv5a1, d5uv5b1, d5uv5b2, d5uv5c1, d5uv5d_
        automated match to d1dloa1
        complexed with mn, y55
    11. Domain for 5vqq:
    12. Domain for 5vqr:
    13. Domain for 5vqs:
    14. Domain for 5vqt:
    15. Domain for 5vqu:
    16. Domain for 5vqv:
    17. Domain for 5vqw:
    18. Domain for 5vqx:
    19. Domain for 5vqy:
    20. Domain for 5vqz:
  16. 2125014Human immunodeficiency virus type 1 group m subtype b [TaxId:11678] [261468] (1 PDB entry)
  17. 2125016Human immunodeficiency virus type 1 [TaxId:11678] [225971] (19 PDB entries)
    1. Domain for 3kli:
    2. Domain for 3qlh:
    3. Domain for 4dg1:
    4. Domain for 4g1q:
    5. Domain for 4h4m:
    6. Domain for 4i7g:
    7. Domain for 4icl:
    8. Domain for 4id5:
    9. Domain for 4idk:
    10. Domain for 4ifv:
    11. Domain for 4ify:
    12. Domain for 4ig0:
    13. Domain for 4ig3:
    14. Domain for 4kfb:
    15. Domain for 4ko0:
    16. Domain for 4lsn:
    17. Domains for 4pqu:
      1. 2125029Domain d4pqua2: 4pqu A:430-545 [257525]
        Other proteins in same PDB: d4pqua1, d4pqub_, d4pquc1, d4pqud_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with dtp, edo, gol, mg, so4
      2. 2125030Domain d4pquc2: 4pqu C:430-545 [258230]
        Other proteins in same PDB: d4pqua1, d4pqub_, d4pquc1, d4pqud_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with dtp, edo, gol, mg, so4
    18. Domains for 4puo:
      1. 2125034Domain d4puoa2: 4puo A:430-554 [263570]
        Other proteins in same PDB: d4puoa1, d4puoa3, d4puob_, d4puoc1, d4puoc3, d4puod_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with nvp
      2. 2125035Domain d4puoc2: 4puo C:430-554 [263572]
        Other proteins in same PDB: d4puoa1, d4puoa3, d4puob_, d4puoc1, d4puoc3, d4puod_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with nvp
    19. Domains for 4pwd:
      1. 2125036Domain d4pwda2: 4pwd A:430-554 [263580]
        Other proteins in same PDB: d4pwda1, d4pwda3, d4pwdb_, d4pwdc1, d4pwdc3, d4pwdd_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with ca, nvp, so4
      2. 2125037Domain d4pwdc2: 4pwd C:430-554 [263582]
        Other proteins in same PDB: d4pwda1, d4pwda3, d4pwdb_, d4pwdc1, d4pwdc3, d4pwdd_
        automated match to d2ykna2
        protein/DNA complex; protein/RNA complex; complexed with ca, nvp, so4
  18. 2125039Human immunodeficiency virus type 1 [TaxId:11706] [225515] (19 PDB entries)
    1. Domain for 3di6:
    2. Domain for 3dm2:
    3. Domain for 3dmj:
    4. Domain for 3dok:
    5. Domain for 3drp:
    6. Domain for 3drr:
    7. Domain for 3drs:
    8. Domain for 3dya:
    9. Domain for 3e01:
    10. Domain for 3kjv:
    11. Domain for 3kk1:
    12. Domain for 3kk2:
    13. Domain for 3kk3:
    14. Domain for 3lp0:
    15. Domain for 3lp1:
    16. Domain for 3lp2:
    17. Domain for 3m8p:
    18. Domain for 3m8q:
    19. Domain for 3nbp:
  19. 2125059Lassa virus [TaxId:11620] [311334] (1 PDB entry)
  20. 2125063Methylocaldum szegediense [TaxId:73780] [269348] (1 PDB entry)
  21. 2125065Moloney murine leukemia virus [TaxId:11801] [225127] (1 PDB entry)
  22. 2125067Mouse (Mus musculus) [TaxId:10090] [187264] (6 PDB entries)
    1. Domain for 2ioc:
    2. Domains for 2o4g:
      1. 2125075Domain d2o4gb_: 2o4g B: [148585]
        Other proteins in same PDB: d2o4ga1
        automated match to d1y97a1
        protein/DNA complex; complexed with mg, tmp
      2. 2125076Domain d2o4gc_: 2o4g C: [148586]
        Other proteins in same PDB: d2o4ga1
        automated match to d1y97a1
        protein/DNA complex; complexed with mg, tmp
      3. 2125077Domain d2o4gd_: 2o4g D: [148587]
        Other proteins in same PDB: d2o4ga1
        automated match to d1y97a1
        protein/DNA complex; complexed with mg, tmp
    3. Domains for 2oa8:
      1. 2125073Domain d2oa8a2: 2oa8 A:5-234 [148693]
        Other proteins in same PDB: d2oa8a3, d2oa8b3, d2oa8b4
        automated match to d1y97a1
        protein/DNA complex; complexed with ca
      2. 2125074Domain d2oa8b2: 2oa8 B:5-234 [148694]
        Other proteins in same PDB: d2oa8a3, d2oa8b3, d2oa8b4
        automated match to d1y97a1
        protein/DNA complex; complexed with ca
    4. Domains for 3b6o:
      1. 2125068Domain d3b6oa_: 3b6o A: [154901]
        automated match to d1y97a1
        protein/DNA complex; complexed with li, tmp
      2. 2125069Domain d3b6ob_: 3b6o B: [154902]
        automated match to d1y97a1
        protein/DNA complex; complexed with li, tmp
      3. 2125070Domain d3b6oc_: 3b6o C: [154903]
        automated match to d1y97a1
        protein/DNA complex; complexed with li, tmp
      4. 2125071Domain d3b6od_: 3b6o D: [154904]
        automated match to d1y97a1
        protein/DNA complex; complexed with li, tmp
    5. Domains for 3b6p:
      1. 2125078Domain d3b6pa_: 3b6p A: [154905]
        automated match to d1y97a1
        protein/DNA complex; complexed with na, tmp, zn
      2. 2125079Domain d3b6pb_: 3b6p B: [154906]
        automated match to d1y97a1
        protein/DNA complex; complexed with na, tmp, zn
      3. 2125080Domain d3b6pc_: 3b6p C: [154907]
        automated match to d1y97a1
        protein/DNA complex; complexed with na, tmp, zn
      4. 2125081Domain d3b6pd_: 3b6p D: [154908]
        automated match to d1y97a1
        protein/DNA complex; complexed with na, tmp, zn
    6. Domains for 3u6f:
      1. 2125082Domain d3u6fa_: 3u6f A: [250093]
        automated match to d2oa8b_
        protein/DNA complex; complexed with bu1, mg; mutant
      2. 2125083Domain d3u6fb_: 3u6f B: [250094]
        automated match to d2oa8b_
        protein/DNA complex; complexed with bu1, mg; mutant
  23. 2125084Pyrococcus furiosus [TaxId:2261] [224898] (3 PDB entries)
    1. Domain for 2jgu:
    2. Domain for 3a2f:
    3. Domains for 4ahc:
      1. 2125085Domain d4ahca1: 4ahc A:1-347 [218866]
        Other proteins in same PDB: d4ahca2, d4ahcb2
        automated match to d2vwja1
        complexed with gol
      2. 2125086Domain d4ahcb1: 4ahc B:1-347 [218868]
        Other proteins in same PDB: d4ahca2, d4ahcb2
        automated match to d2vwja1
        complexed with gol
  24. 2125089Pyrococcus kodakaraensis [TaxId:69014] [311138] (1 PDB entry)
  25. 2125091Sulfolobus tokodaii [TaxId:273063] [255750] (2 PDB entries)
    1. Domain for 2ehg:
    2. Domains for 3aly:
      1. 2125093Domain d3alya_: 3aly A: [245170]
        automated match to d3u3ga_
      2. 2125094Domain d3alyb_: 3aly B: [245171]
        automated match to d3u3ga_
  26. 2125095Thermococcus kodakarensis [TaxId:69014] [226698] (1 PDB entry)
  27. 2125097Thermus aquaticus [TaxId:271] [267867] (4 PDB entries)
    1. Domain for 3po4:
    2. Domain for 3po5:
    3. Domain for 4bwj:
    4. Domain for 4bwm:
      • 2125100Domain d4bwma1: 4bwm A:295-422 [265959]
        Other proteins in same PDB: d4bwma2
        automated match to d1bgxt3
        protein/DNA complex; protein/RNA complex; complexed with cl, dct, fmt, mg; mutant
  28. 2125102uncultured organism [TaxId:155900] [233764] (1 PDB entry)
  29. 2125107Xanthomonas campestris pv. campestris [TaxId:340] [187742] (1 PDB entry)
  30. 2125109Xenotropic mulv-related virus vp35 [TaxId:356663] [226326] (3 PDB entries)
    1. Domain for 3v1o:
    2. Domain for 3v1q:
    3. Domain for 3v1r:
  31. 2125113Xenotropic mulv-related virus [TaxId:373193] [194522] (1 PDB entry)
  32. 2125115Xenotropic mulv-related virus [TaxId:438045] [225994] (1 PDB entry)
  33. 2269585Mouse mammary tumor virus (strain br6) [TaxId:11758] [312889] (1 PDB entry)
  34. 2276042Moloney murine leukemia virus (isolate shinnick) [TaxId:928306] [319343] (1 PDB entry)

More info for Protein automated matches from c.55.3.0: automated matches

Timeline for Protein automated matches from c.55.3.0: automated matches: