Lineage for Class f: Membrane and cell surface proteins and peptides

  1. Root: SCOP 1.69
  2. 519077Class f: Membrane and cell surface proteins and peptides [56835] (47 folds)

Folds:

  1. 519078f.1: Toxins' membrane translocation domains [56836] (5 superfamilies)
    multi-helical domains of various folds which is thought to unfold in the membrane
  2. 519170f.3: Light-harvesting complex subunits [56917] (1 superfamily)
    membrane all-alpha fold
  3. 519206f.4: Transmembrane beta-barrels [56924] (6 superfamilies)
    not a true fold, gathers together transmembrane barrels of different (n,S)
  4. 519379f.5: Integral outer membrane protein TolC, efflux pump component [56953] (1 superfamily)
    subunit fold contains tandem repeat of alpha-beta hairpin-alpha(2) motif
    trimeric fold contains barrel (n=12, S=18) formed by beta-hairpins, two from each subunit, and a bundle of helices with a channel running through it
  5. 519390f.6: Leukocidin-like [56958] (1 superfamily)
    subunit fold contains beta-sandwich of Ig-like (grerk-key) topology and a beta-ribbon arm that forms an oligomeric transmembrane barrel
  6. 519425f.7: Lipovitellin-phosvitin complex; beta-sheet shell regions [56967] (1 superfamily)
    contains several large open beta-sheets
  7. 519433f.8: Aerolisin/ETX pore-forming domain [56972] (1 superfamily)
    3 domains: (1) alpha+beta; (2&3) all-beta
  8. 519446f.9: Perfringolysin [56977] (1 superfamily)
    2 domains: (1) alpha+beta; (2) all-beta, similar to the CalB domain fold but the two last strands are transposed
  9. 519458f.10: Viral glycoprotein, central and dimerisation domains [56982] (1 superfamily)
    2 intertwined domains; all-beta and alpha+beta
  10. 519489f.11: Anthrax protective antigen [56987] (1 superfamily)
    4 domains; I (res. 14-225) and II (226-487) are beta-sandwiches of similar gamma-crystallin like topologies; III (488-594) has a beta-grasp like fold; IV (595-735) has an Ig-like fold
  11. 519510f.12: Head and neck region of the ectodomain of NDV fusion glycoprotein [69921] (1 superfamily)
    3 intertwined all-beta domains
  12. 519521f.13: Family A G protein-coupled receptor-like [81322] (1 superfamily)
    core: up-and-down bundle of seven transmembrane helices tilted 20 degrees with respect to the plane of the membrane
  13. 519626f.14: Voltage-gated potassium channels [81325] (1 superfamily)
    oligomeric transmembrane alpha-helical proteins
  14. 519680f.15: Small-conductance potassium channel [81328] (1 superfamily)
    oligomeric transmembrane alpha-helical protein
  15. 519687f.16: Gated mechanosensitive channel [81331] (1 superfamily)
    oligomeric transmembrane alpha-helical protein
  16. 519697f.17: Transmembrane helix hairpin [81334] (2 superfamilies)
    two antiparallel transmembrane helices
  17. 519753f.18: F1F0 ATP synthase subunit A [81337] (1 superfamily)
    core: up-and-down bundle of four transmembrane helices
  18. 519759f.19: Aquaporin-like [81339] (1 superfamily)
    core: 8 helices, 2 short helices are surrounded by 6 long transmembrane helices
  19. 519782f.20: Clc chloride channel [81341] (1 superfamily)
    core: 18 transmembrane helices
  20. 519804f.21: Heme-binding four-helical bundle [81344] (3 superfamilies)
    core: four transmembrane helices, up-and-down bundle, binds one or two heme groups in between the helices
  21. 519888f.22: ABC transporter involved in vitamin B12 uptake, BtuC [81346] (1 superfamily)
    multihelical; complex architecture with several transmembrane helices
  22. 519895f.23: Single transmembrane helix [81407] (30 superfamilies)
    not a true fold
  23. 520330f.24: Cytochrome c oxidase subunit I-like [81443] (1 superfamily)
    12 transmembrane helices in an approximate threefold rotational symmetric arrangement
  24. 520365f.25: Cytochrome c oxidase subunit III-like [81453] (1 superfamily)
    core: 7 transmembrane helices organized into two bundles, one formed by the first two helices and the other by the rest
  25. 520396f.26: Bacterial photosystem II reaction centre, L and M subunits [81484] (1 superfamily)
    five transmembrane helices forming a sheet-like structure
  26. 520521f.27: 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81525] (1 superfamily)
    membrane-associated alpha-helical protein; no transmembrane helices
  27. 520551f.28: Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81532] (1 superfamily)
    membrane-associated alpha-helical protein; no transmembrane helices
  28. 520581f.29: Photosystem I subunits PsaA/PsaB [81559] (1 superfamily)
    core:11 transmembrane helices
  29. 520590f.30: Photosystem I reaction center subunit X, PsaK [81564] (1 superfamily)
    core: hairpin of two transmembrane helices
  30. 520596f.31: Photosystem I reaction center subunit XI, PsaL [81569] (1 superfamily)
    core: three transmembrane helices, bundle
  31. 520602f.32: a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81649] (1 superfamily)
    core: three transmembrane helices, up-and-down bundle
  32. 520638f.33: Calcium ATPase, transmembrane domain M [81666] (1 superfamily)
    core: multihelical; consists of three transmembrane regions of 2, 2 and 6 helices, separated by cytoplasmic domains
  33. 520651f.34: Mechanosensitive channel protein MscS (YggB), transmembrane region [82860] (1 superfamily)
    oligomeric fold; 3 transmembrane helices per subunit
  34. 520663f.35: Multidrug efflux transporter AcrB transmembrane domain [82865] (1 superfamily)
    12 transmembrane helices; duplication: the N- and C-terminal halves of the whole proteins are structurally similar
  35. 520680f.36: Neurotransmitter-gated ion-channel transmembrane pore [90111] (1 superfamily)
    heteropentameric transmembrane alpha-helical protein; 4 transmembrane helices per subunit
  36. 520696f.37: Multidrug resistance ABC transporter MsbA, N-terminal domain [90122] (1 superfamily)
    multihelical; complex architecture with several transmembrane helices
  37. 520705f.38: MFS general substrate transporter [103472] (1 superfamily)
    12 transmembrane helices; duplication: the N- and C-terminal halves are structurally similar
  38. 520718f.39: Multidrug resistance efflux transporter EmrE [103480] (1 superfamily)
    oligomeric fold; 3 transmembrane helices per subunit
  39. 520731f.40: V-type ATP synthase subunit C [103485] (1 superfamily)
    9 transmembrane helices
  40. 520740f.41: Preprotein translocase SecY subunit [103490] (1 superfamily)
    10 transmembrane helices forming of a gated channel
  41. 520747f.42: Mitochondrial carrier [103505] (1 superfamily)
    membrane all-alpha fold; 6-helical "barrel" with internal binding cavity
  42. 520753f.43: Chlorophyll a-b binding protein [103510] (1 superfamily)
    membrane all-alpha fold; three transmembrane helices
  43. 520768f.44: Ammonium ransporter (Pfam 00909) [111351] (1 superfamily)
    11 transmembrane helices; duplication: consist of 2 structural repeats of five helices each plus extra C-terminal helix
  44. 520776f.45: Mitochondrial ATP synthase coupling factor 6 (Pfam 05511) [111356] (1 superfamily)
    2 helices, hairpin
  45. 520782f.46: HlyD-like secretion proteins (Pfam 00529) [111368] (1 superfamily)
    consists of three domains: beta-barrel (res. 29-38,170-259; scop_cf 50412); barrel-sandwich hybrid (39-72,135-169; scop_sf 51230) and long alpha-hairpin (73-134; scop_cf 46556)
  46. 520813f.47: VP4 membrane interaction domain [111378] (1 superfamily)
    2 domains; d1: complexed all-beta fold; d2: coiled-coil (trimeric) helical region
  47. 520824f.48: OmpH-like (Pfam 03938) [111383] (1 superfamily)
    trimer; one subunit consists of an alpha/beta oligomerization subdomain [3-stranded parallel beta-sheet, order 213], and an antiparallel coiled coil

More info for Class f: Membrane and cell surface proteins and peptides

Timeline for Class f: Membrane and cell surface proteins and peptides: