Lineage for Species: Human immunodeficiency virus type 1 [TaxId: 11676]

  1. Root: SCOPe 2.08
  2. 2826024Class c: Alpha and beta proteins (a/b) [51349] (148 folds)
  3. 2883383Fold 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. 2885833Superfamily c.55.3: Ribonuclease H-like [53098] (18 families) (S)
    consists of one domain of this fold
  5. 2886113Family c.55.3.2: Retroviral integrase, catalytic domain [53107] (2 proteins)
    Pfam PF00665
  6. 2886114Protein Retroviral integrase, catalytic domain [53108] (5 species)
  7. 2886120Species Human immunodeficiency virus type 1 [TaxId:11676] [53110] (73 PDB entries)

PDB entries in Species: Human immunodeficiency virus type 1 [TaxId: 11676]:

  1. Domain(s) for 1b92:
  2. Domain(s) for 1b9d:
  3. Domain(s) for 1b9f:
  4. Domain(s) for 1bhl:
  5. Domain(s) for 1bi4:
    1. 2886218Domain d1bi4a_: 1bi4 A: [33666]
    2. 2886219Domain d1bi4b_: 1bi4 B: [33667]
    3. 2886220Domain d1bi4c_: 1bi4 C: [33668]
  6. Domain(s) for 1bis:
    1. 2886144Domain d1bisa_: 1bis A: [33650]
    2. 2886145Domain d1bisb_: 1bis B: [33651]
  7. Domain(s) for 1biu:
    1. 2886191Domain d1biua_: 1biu A: [33663]
      protein/DNA complex; complexed with mg
    2. 2886192Domain d1biub_: 1biu B: [33664]
      protein/DNA complex; complexed with mg
    3. 2886193Domain d1biuc_: 1biu C: [33665]
      protein/DNA complex; complexed with mg
  8. Domain(s) for 1biz:
    1. 2886147Domain d1biza_: 1biz A: [33652]
      complexed with cac
    2. 2886148Domain d1bizb_: 1biz B: [33653]
      complexed with cac
  9. Domain(s) for 1bl3:
    1. 2886163Domain d1bl3a_: 1bl3 A: [33655]
      complexed with mg
    2. 2886164Domain d1bl3b_: 1bl3 B: [33656]
      complexed with mg
    3. 2886165Domain d1bl3c_: 1bl3 C: [33657]
      complexed with mg
  10. Domain(s) for 1ex4:
    1. 2886233Domain d1ex4a2: 1ex4 A:56-222 [33670]
      Other proteins in same PDB: d1ex4a1, d1ex4b1
      complexed with cps
    2. 2886234Domain d1ex4b2: 1ex4 B:55-222 [33671]
      Other proteins in same PDB: d1ex4a1, d1ex4b1
      complexed with cps
  11. Domain(s) for 1exq:
    1. 2886142Domain d1exqa_: 1exq A: [33646]
      complexed with cd, cl, so4
    2. 2886143Domain d1exqb_: 1exq B: [33647]
      complexed with cd, cl, so4
  12. Domain(s) for 1hyv:
    • 2886159Domain d1hyva_: 1hyv A: [61424]
      protein/DNA complex; complexed with cl, so4, tta
  13. Domain(s) for 1hyz:
    • 2886225Domain d1hyza_: 1hyz A: [61426]
      protein/DNA complex; complexed with cl, so4, tto
  14. Domain(s) for 1itg:
  15. Domain(s) for 1k6y:
    1. 2886203Domain d1k6ya2: 1k6y A:56-210 [68240]
      Other proteins in same PDB: d1k6ya1, d1k6yb1, d1k6yc1, d1k6yd1
      complexed with k, po4, zn
    2. 2886204Domain d1k6yb2: 1k6y B:56-212 [68242]
      Other proteins in same PDB: d1k6ya1, d1k6yb1, d1k6yc1, d1k6yd1
      complexed with k, po4, zn
    3. 2886205Domain d1k6yc2: 1k6y C:56-209 [68244]
      Other proteins in same PDB: d1k6ya1, d1k6yb1, d1k6yc1, d1k6yd1
      complexed with k, po4, zn
    4. 2886206Domain d1k6yd2: 1k6y D:56-211 [68246]
      Other proteins in same PDB: d1k6ya1, d1k6yb1, d1k6yc1, d1k6yd1
      complexed with k, po4, zn
  16. Domain(s) for 1qs4:
    1. 2886212Domain d1qs4a_: 1qs4 A: [33658]
      protein/DNA complex; complexed with 100, mg
    2. 2886213Domain d1qs4b_: 1qs4 B: [33659]
      protein/DNA complex; complexed with 100, mg
    3. 2886214Domain d1qs4c_: 1qs4 C: [33660]
      protein/DNA complex; complexed with 100, mg
  17. Domain(s) for 2b4j:
    1. 2886201Domain d2b4ja_: 2b4j A: [127833]
      Other proteins in same PDB: d2b4jc1, d2b4jc2, d2b4jd2, d2b4jd3
      automated match to d1bi4c_
      complexed with gol, po4
    2. 2886202Domain d2b4jb_: 2b4j B: [127834]
      Other proteins in same PDB: d2b4jc1, d2b4jc2, d2b4jd2, d2b4jd3
      automated match to d1bi4c_
      complexed with gol, po4
  18. Domain(s) for 2itg:
  19. Domain(s) for 3ao1:
    1. 2886136Domain d3ao1a_: 3ao1 A: [172279]
      automated match to d1bi4c_
      protein/DNA complex; complexed with bzx, cd, so4
    2. 2886137Domain d3ao1b_: 3ao1 B: [172280]
      automated match to d1bi4c_
      protein/DNA complex; complexed with bzx, cd, so4
  20. Domain(s) for 3l3u:
    1. 2886121Domain d3l3ua_: 3l3u A: [236775]
      automated match to d3ao1a_
      complexed with so4
    2. 2886122Domain d3l3ub_: 3l3u B: [236773]
      automated match to d3ovnb_
      complexed with so4
  21. Domain(s) for 3l3v:
    1. 2886167Domain d3l3va_: 3l3v A: [236772]
      automated match to d3ao1b_
      protein/DNA complex; complexed with cd, so4
    2. 2886168Domain d3l3vb_: 3l3v B: [236774]
      automated match to d3ovnb_
      protein/DNA complex; complexed with cd, so4
  22. Domain(s) for 3ovn:
    1. 2886173Domain d3ovna_: 3ovn A: [183318]
      automated match to d1bi4c_
      protein/DNA complex; complexed with cd, mpv, so4
    2. 2886174Domain d3ovnb_: 3ovn B: [183319]
      automated match to d1bi4c_
      protein/DNA complex; complexed with cd, mpv, so4
  23. Domain(s) for 3vq4:
    1. 2886140Domain d3vq4a_: 3vq4 A: [218019]
      automated match to d2itga_
      protein/DNA complex; complexed with 0nx, cd, so4
    2. 2886141Domain d3vq4b_: 3vq4 B: [218020]
      automated match to d2itga_
      protein/DNA complex; complexed with 0nx, cd, so4
  24. Domain(s) for 3vq5:
    1. 2886123Domain d3vq5a_: 3vq5 A: [218021]
      automated match to d1bizb_
      protein/DNA complex; complexed with cd, cl, mmj, so4
    2. 2886124Domain d3vq5b_: 3vq5 B: [218022]
      automated match to d1bizb_
      protein/DNA complex; complexed with cd, cl, mmj, so4
  25. Domain(s) for 3vq6:
    1. 2886134Domain d3vq6a_: 3vq6 A: [218023]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with bck, cd, so4
    2. 2886135Domain d3vq6b_: 3vq6 B: [218024]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with bck, cd, so4
  26. Domain(s) for 3vq7:
    1. 2886129Domain d3vq7a_: 3vq7 A: [218025]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, snu, so4
    2. 2886130Domain d3vq7b_: 3vq7 B: [218026]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, snu, so4
  27. Domain(s) for 3vq8:
    1. 2886127Domain d3vq8a_: 3vq8 A: [218027]
      automated match to d1bizb_
      protein/DNA complex; complexed with bcu, cd, cl, so4
    2. 2886128Domain d3vq8b_: 3vq8 B: [218028]
      automated match to d1bizb_
      protein/DNA complex; complexed with bcu, cd, cl, so4
  28. Domain(s) for 3vq9:
    1. 2886131Domain d3vq9a_: 3vq9 A: [193266]
      automated match to d1bl3c_
      protein/DNA complex; complexed with fbb
    2. 2886132Domain d3vq9b_: 3vq9 B: [193267]
      automated match to d1bl3c_
      protein/DNA complex; complexed with fbb
    3. 2886133Domain d3vq9c_: 3vq9 C: [201255]
      automated match to d3vq9b_
      protein/DNA complex; complexed with fbb
  29. Domain(s) for 3vqa:
    1. 2886160Domain d3vqaa_: 3vqa A: [218029]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with cd, mwp, so4
    2. 2886161Domain d3vqab_: 3vqa B: [218030]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with cd, mwp, so4
  30. Domain(s) for 3vqb:
    1. 2886169Domain d3vqba_: 3vqb A: [218031]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, fbg, so4
    2. 2886170Domain d3vqbb_: 3vqb B: [218032]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, fbg, so4
  31. Domain(s) for 3vqc:
    1. 2886189Domain d3vqca_: 3vqc A: [218033]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, mpk, so4
    2. 2886190Domain d3vqcb_: 3vqc B: [218034]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, mpk, so4
  32. Domain(s) for 3vqd:
    1. 2886150Domain d3vqda_: 3vqd A: [218035]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, mok, so4
    2. 2886151Domain d3vqdb_: 3vqd B: [218036]
      automated match to d2itga_
      protein/DNA complex; complexed with cd, mok, so4
  33. Domain(s) for 3vqe:
    1. 2886125Domain d3vqea_: 3vqe A: [218037]
      automated match to d1bizb_
      protein/DNA complex; protein/RNA complex; complexed with cd, cl, fmq, so4
    2. 2886126Domain d3vqeb_: 3vqe B: [218038]
      automated match to d1bizb_
      protein/DNA complex; protein/RNA complex; complexed with cd, cl, fmq, so4
  34. Domain(s) for 3vqp:
    1. 2886152Domain d3vqpa_: 3vqp A: [218039]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with cd, cl, dbj, so4
    2. 2886153Domain d3vqpb_: 3vqp B: [218040]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with cd, cl, dbj, so4
  35. Domain(s) for 3vqq:
    1. 2886178Domain d3vqqa_: 3vqq A: [218041]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with bte, cd, so4
    2. 2886179Domain d3vqqb_: 3vqq B: [218042]
      automated match to d2itga_
      protein/DNA complex; protein/RNA complex; complexed with bte, cd, so4
  36. Domain(s) for 4lh4:
  37. Domain(s) for 4lh5:
  38. Domain(s) for 4nyf:
    1. 2886171Domain d4nyfa_: 4nyf A: [263234]
      automated match to d3vq9c_
      complexed with 4bi, cd
    2. 2886172Domain d4nyfb_: 4nyf B: [257202]
      automated match to d3vq9c_
      complexed with 4bi, cd
  39. Domain(s) for 4o0j:
  40. Domain(s) for 4o55:
  41. Domain(s) for 4o5b:
  42. Domain(s) for 4ojr:
  43. Domain(s) for 4ovl:
    1. 2886138Domain d4ovla_: 4ovl A: [237439]
      automated match to d4ah9a_
      complexed with 1td, acy, edo, gol, so4
    2. 2886139Domain d4ovlb_: 4ovl B: [237438]
      automated match to d4ah9a_
      complexed with 1td, acy, edo, gol, so4
  44. Domain(s) for 4tsx:
  45. Domain(s) for 5eu7:
    1. 2886235Domain d5eu7a_: 5eu7 A: [323323]
      Other proteins in same PDB: d5eu7c1, d5eu7c2, d5eu7d1, d5eu7d2, d5eu7e_, d5eu7f_
      automated match to d1bisa_
    2. 2886236Domain d5eu7b_: 5eu7 B: [323362]
      Other proteins in same PDB: d5eu7c1, d5eu7c2, d5eu7d1, d5eu7d2, d5eu7e_, d5eu7f_
      automated match to d1bisa_
  46. Domain(s) for 5hrn:
    • 2886177Domain d5hrna_: 5hrn A: [327186]
      automated match to d3vq9c_
      protein/DNA complex; complexed with 65p, cac, edo, so4; mutant
  47. Domain(s) for 5hrp:
    • 2886180Domain d5hrpa_: 5hrp A: [327134]
      automated match to d3vq9c_
      protein/DNA complex; complexed with 65p, cac, edo, so4; mutant
  48. Domain(s) for 5hrr:
    • 2886184Domain d5hrra_: 5hrr A: [327195]
      automated match to d3vq9c_
      protein/DNA complex; complexed with 65p, cac, edo, so4; mutant
  49. Domain(s) for 5hrs:
    • 2886182Domain d5hrsa_: 5hrs A: [327148]
      automated match to d3vq9c_
      protein/DNA complex; complexed with 65p, cac, edo, so4; mutant
  50. Domain(s) for 5jl4:
    1. 2886175Domain d5jl4a_: 5jl4 A: [339781]
      automated match to d3vq9c_
      complexed with so4; mutant
    2. 2886176Domain d5jl4b_: 5jl4 B: [339782]
      automated match to d3vq9c_
      complexed with so4; mutant
  51. Domain(s) for 5kgw:
  52. Domain(s) for 5krs:
  53. Domain(s) for 5krt:
  54. Domain(s) for 5oi3:
  55. Domain(s) for 5oi8:
  56. Domain(s) for 5oia:
  57. Domain(s) for 6eb1:
  58. Domain(s) for 6eb2:
  59. Domain(s) for 6ex9:
  60. Domain(s) for 6jcf:
  61. Domain(s) for 6jcg:
  62. Domain(s) for 6lmi:
  63. Domain(s) for 6lmq:
  64. Domain(s) for 6ncj:
  65. Domain(s) for 6nuj:
  66. Domain(s) for 6vka:
    1. 2886155Domain d6vkaa_: 6vka A: [400650]
      automated match to d3vq9c_
      complexed with iod, qzv, so4
    2. 2886156Domain d6vkab_: 6vka B: [400671]
      automated match to d3vq9c_
      complexed with iod, qzv, so4
  67. Domain(s) for 6vlh:
    1. 2886187Domain d6vlha_: 6vlh A: [400654]
      automated match to d3vq9c_
      complexed with iod, r2a, so4
    2. 2886188Domain d6vlhb_: 6vlh B: [400677]
      automated match to d3vq9c_
      complexed with iod, r2a, so4
  68. Domain(s) for 6vrg:
    1. 2886196Domain d6vrga2: 6vrg A:56-211 [392787]
      Other proteins in same PDB: d6vrga1, d6vrgb1, d6vrgc1, d6vrgd1
      automated match to d1k6yb2
      complexed with k, po4, zn
    2. 2886197Domain d6vrgb2: 6vrg B:56-210 [392796]
      Other proteins in same PDB: d6vrga1, d6vrgb1, d6vrgc1, d6vrgd1
      automated match to d1k6ya2
      complexed with k, po4, zn
    3. 2886198Domain d6vrgc2: 6vrg C:56-210 [392808]
      Other proteins in same PDB: d6vrga1, d6vrgb1, d6vrgc1, d6vrgd1
      automated match to d1k6ya2
      complexed with k, po4, zn
    4. 2886199Domain d6vrgd2: 6vrg D:56-209 [392820]
      Other proteins in same PDB: d6vrga1, d6vrgb1, d6vrgc1, d6vrgd1
      automated match to d1k6ya2
      complexed with k, po4, zn
  69. Domain(s) for 6vx2:
  70. Domain(s) for 6w0u:
  71. Domain(s) for 6wc8:
  72. Domain(s) for 6we7:
  73. Domain(s) for 7d83:

More info for Species Human immunodeficiency virus type 1 [TaxId:11676] from c.55.3.2 Retroviral integrase, catalytic domain

Timeline for Species Human immunodeficiency virus type 1 [TaxId:11676] from c.55.3.2 Retroviral integrase, catalytic domain: