Class: Membrane and cell surface proteins and peptides

Does not include proteins in the immune system

Lineage:

1. Root: scop
2. Class: Membrane and cell surface proteins and peptides [56835]
   Does not include proteins in the immune system

Folds:

1. Toxins' membrane translocation domains [56836] (5)
   multi-helical domains of various folds which is thought to unfold in the membrane
   1. Colicin [56837] (1)
      uperfamily
   2. Diphtheria toxin, middle domain [56845] (1)
      uperfamily
   3. delta-Endotoxin (insectocide), N-terminal domain [56849] (1)
      uperfamily
   4. Bcl-2 inhibitors of programmed cell death [56854] (1)
      PROVISIONAL CLASSIFICATION, based on structural similarity to the diphtheria toxin domain
      uperfamily
   5. Exotoxin A, middle domain [56864] (1)
      uperfamily
2. Family A G protein-coupled receptor-like [81322] (1)
   core: up-and-down bundle of seven transmembrane helices tilted 20 degrees with respect to the plane of the membrane
   1. Family A G protein-coupled receptor-like [81321] (2)
      uperfamily
3. Single transmembrane helix [81407] (38)
   not a true fold
   1. Photosystem II reaction centre subunit H, transmembrane region [81490] (1)
      uperfamily
   2. Mitochondrial cytochrome c oxidase subunit IV [81406] (1)
      uperfamily
   3. Mitochondrial cytochrome c oxidase subunit VIa [81411] (1)
      uperfamily
   4. Mitochondrial cytochrome c oxidase subunit VIc [81415] (1)
      uperfamily
   5. Mitochondrial cytochrome c oxidase subunit VIIa [81419] (1)
      uperfamily
   6. Mitochondrial cytochrome c oxidase subunit VIIb [81423] (1)
      uperfamily
   7. Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) [81427] (1)
      uperfamily
   8. Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX) [81431] (1)
      uperfamily
   9. Bacterial aa3 type cytochrome c oxidase subunit IV [81469] (1)
      uperfamily
   10. Bacterial ba3 type cytochrome c oxidase subunit IIa [81473] (1)
       uperfamily
   11. F1F0 ATP synthase subunit B, membrane domain [81573] (1)
       uperfamily
   12. Cytochrome c1 subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase), transmembrane anchor [81496] (1)
       uperfamily
   13. ISP transmembrane anchor [81502] (1)
       uperfamily
   14. Ubiquinone-binding protein QP-C of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81508] (1)
       uperfamily
   15. Subunit X (non-heme 7 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81514] (1)
       uperfamily
   16. Subunit XI (6.4 kDa protein) of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81518] (1)
       uperfamily
   17. Subunit III of photosystem I reaction centre, PsaF [81536] (1)
       uperfamily
   18. Subunit VIII of photosystem I reaction centre, PsaI [81540] (1)
       uperfamily
   19. Subunit IX of photosystem I reaction centre, PsaJ [81544] (1)
       uperfamily
   20. Subunit XII of photosystem I reaction centre, PsaM [81548] (1)
       uperfamily
   21. Subunit PsaX of photosystem I reaction centre [81552] (1)
       uperfamily
   22. Iron-sulfur subunit of formate dehydrogenase N, transmembrane anchor [81597] (1)
       uperfamily
   23. Cytochrome f subunit of the cytochrome b6f complex, transmembrane anchor [103431] (1)
       uperfamily
   24. PetL subunit of the cytochrome b6f complex [103436] (1)
       uperfamily
   25. PetM subunit of the cytochrome b6f complex [103441] (1)
       uperfamily
   26. PetG subunit of the cytochrome b6f complex [103446] (1)
       uperfamily
   27. PetN subunit of the cytochrome b6f complex [103451] (1)
       uperfamily
   28. Preprotein translocase SecE subunit [103456] (1)
       uperfamily
   29. Sec-beta subunit [103460] (1)
       uperfamily
   30. Oligosaccharyltransferase subunit ost4p [103464] (1)
       uperfamily
   31. Photosystem II reaction center protein L, PsbL [161017] (1)
   32. Photosystem II reaction center protein J, PsbJ [161021] (1)
   33. Photosystem II 10 kDa phosphoprotein PsbH [161025] (1)
   34. Photosystem II reaction center protein T, PsbT [161029] (1)
   35. Photosystem II reaction center protein M, PsbM [161033] (1)
   36. Photosystem II reaction center protein K, PsbK [161037] (1)
   37. Photosystem II reaction center protein I, PsbI [161041] (1)
   38. Cytochrome b559 subunits [161045] (1)
4. Bacterial photosystem II reaction centre, L and M subunits [81484] (1)
   five transmembrane helices forming a sheet-like structure
   1. Bacterial photosystem II reaction centre, L and M subunits [81483] (1)
      uperfamily
5. Cytochrome c oxidase subunit I-like [81443] (1)
   12 transmembrane helices in an approximate threefold rotational symmetric arrangement
   1. Cytochrome c oxidase subunit I-like [81442] (1)
      uperfamily
6. Cytochrome c oxidase subunit III-like [81453] (1)
   core: 7 transmembrane helices organized into two bundles, one formed by the first two helices and the other by the rest
   1. Cytochrome c oxidase subunit III-like [81452] (1)
      uperfamily
7. Transmembrane helix hairpin [81334] (5)
   two antiparallel transmembrane helices
   1. Cytochrome c oxidase subunit II-like, transmembrane region [81464] (1)
      uperfamily
   2. F1F0 ATP synthase subunit C [81333] (1)
      uperfamily
   3. Magnesium transport protein CorA, transmembrane region [144083] (1)
      forms homopentameric channel
      uperfamily
   4. Htr2 transmembrane domain-like [158212] (1)
   5. PsbZ-like [161055] (1)
8. F1F0 ATP synthase subunit A [81337] (1)
   core: up-and-down bundle of four transmembrane helices
   1. F1F0 ATP synthase subunit A [81336] (1)
      uperfamily
9. ATP synthase B chain-like [161059] (1)
   long single helix, part of the stator subcomplex
   1. ATP synthase B chain-like [161060] (1)
10. ATP synthase D chain-like [161064] (1)
    non-globular, mostly helical component of the stator subcomplex
    1. ATP synthase D chain-like [161065] (1)
11. Aquaporin-like [81339] (1)
    core: 8 helices, 2 short helices are surrounded by 6 long transmembrane helices
    1. Aquaporin-like [81338] (1)
       uperfamily
12. Ammonium transporter [111351] (1)
    11 transmembrane helices; duplication: consist of 2 structural repeats of five helices each plus extra C-terminal helix
    1. Ammonium transporter [111352] (1)
       uperfamily
13. MFS general substrate transporter [103472] (1)
    12 transmembrane helices; duplication: the N- and C-terminal halves are structurally similar
    1. MFS general substrate transporter [103473] (2)
       uperfamily
14. SNF-like [161069] (1)
    12 transmembrane helices; duplication: consists of two structurally similar halves
    1. SNF-like [161070] (1)
15. Proton glutamate symport protein [118214] (1)
    multihelical membrane protein; partial structural duplication in the C-terminal region; oligomeric state: trimer
    1. Proton glutamate symport protein [118215] (1)
       uperfamily
16. Clc chloride channel [81341] (1)
    core: 18 transmembrane helices
    1. Clc chloride channel [81340] (1)
       uperfamily
17. Voltage-gated potassium channels [81325] (1)
    oligomeric transmembrane alpha-helical proteins
    1. Voltage-gated potassium channels [81324] (1)
       uperfamily
18. Small-conductance potassium channel [81328] (1)
    oligomeric transmembrane alpha-helical protein
    1. Small-conductance potassium channel [81327] (1)
       uperfamily
19. Gated mechanosensitive channel [81331] (1)
    oligomeric transmembrane alpha-helical protein
    1. Gated mechanosensitive channel [81330] (1)
       uperfamily
20. Neurotransmitter-gated ion-channel transmembrane pore [90111] (1)
    heteropentameric transmembrane alpha-helical protein; 4 transmembrane helices per subunit
    1. Neurotransmitter-gated ion-channel transmembrane pore [90112] (1)
       uperfamily
21. Mechanosensitive channel protein MscS (YggB), transmembrane region [82860] (1)
    oligomeric fold; 3 transmembrane helices per subunit
    1. Mechanosensitive channel protein MscS (YggB), transmembrane region [82861] (1)
       uperfamily
22. Multidrug resistance efflux transporter EmrE [103480] (1)
    oligomeric fold; 3 transmembrane helices per subunit
    1. Multidrug resistance efflux transporter EmrE [103481] (1)
       uperfamily
23. V-type ATP synthase subunit C [103485] (1)
    9 transmembrane helices
    1. V-type ATP synthase subunit C [103486] (1)
       duplication: consists of three similar structural parts
       uperfamily
24. Preprotein translocase SecY subunit [103490] (1)
    10 transmembrane helices forming of a gated channel
    1. Preprotein translocase SecY subunit [103491] (1)
       duplication: consists of two similar structural parts
       uperfamily
25. Photosystem I subunits PsaA/PsaB [81559] (1)
    core:11 transmembrane helices
    1. Photosystem I subunits PsaA/PsaB [81558] (1)
       uperfamily
26. Photosystem I reaction center subunit X, PsaK [81564] (1)
    core: hairpin of two transmembrane helices
    1. Photosystem I reaction center subunit X, PsaK [81563] (1)
       uperfamily
27. Photosystem I reaction center subunit XI, PsaL [81569] (1)
    core: three transmembrane helices, bundle
    1. Photosystem I reaction center subunit XI, PsaL [81568] (1)
       uperfamily
28. ABC transporter involved in vitamin B12 uptake, BtuC [81346] (1)
    multihelical; complex architecture with several transmembrane helices
    1. ABC transporter involved in vitamin B12 uptake, BtuC [81345] (1)
       uperfamily
29. ABC transporter transmembrane region [90122] (1)
    multihelical; complex architecture with several transmembrane helices
    1. ABC transporter transmembrane region [90123] (1)
       uperfamily
30. Multidrug efflux transporter AcrB transmembrane domain [82865] (1)
    12 transmembrane helices; duplication: the N- and C-terminal halves of the whole proteins are structurally similar
    1. Multidrug efflux transporter AcrB transmembrane domain [82866] (1)
       uperfamily
31. a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81649] (1)
    core: three transmembrane helices, up-and-down bundle
    1. a domain/subunit of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81648] (1)
       uperfamily
32. Heme-binding four-helical bundle [81344] (3)
    core: four transmembrane helices, up-and-down bundle, binds one or two heme groups in between the helices
    1. Transmembrane di-heme cytochromes [81342] (2)
       Three of the four heme-ligands are conserved between the two families; both heme groups bind similarly but not identically
       uperfamily
    2. Respiratory nitrate reductase 1 gamma chain [103501] (1)
       possible link between the two other superfamilies: this subunit corresponds to the gamma subunit of a functionally related Formate dehydrogenase N complex but is structurally closer to the Fumarate reductase subunit FrdC
       uperfamily
    3. Fumarate reductase respiratory complex transmembrane subunits [81343] (2)
       two distinct families: in one family the common fold is contained in a single-chain subunit, in the other it is formed by two chains
       uperfamily
33. 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81525] (1)
    membrane-associated alpha-helical protein; no transmembrane helices
    1. 14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81524] (1)
       location - matrix side of the bc1 complex
       uperfamily
34. Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81532] (1)
    membrane-associated alpha-helical protein; no transmembrane helices
    1. Non-heme 11 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase) [81531] (1)
       location - intermembrane side of the bc1 complex
       uperfamily
35. Mitochondrial ATP synthase coupling factor 6 [111356] (1)
    2 helices, hairpin
    1. Mitochondrial ATP synthase coupling factor 6 [111357] (1)
       uperfamily
36. Calcium ATPase, transmembrane domain M [81666] (1)
    core: multihelical; consists of three transmembrane regions of 2, 2 and 6 helices, separated by cytoplasmic domains
    1. Calcium ATPase, transmembrane domain M [81665] (1)
       uperfamily
37. Light-harvesting complex subunits [56917] (1)
    membrane all-alpha fold
    1. Light-harvesting complex subunits [56918] (1)
       uperfamily
38. Photosystem II antenna protein-like [161076] (1)
    6 transmembrane helices arranged in three antiparallel pairs (hairpins), segregated by cofactors; there can be insertions of different small subdomains in different exposed loops
    1. Photosystem II antenna protein-like [161077] (1)
39. Mitochondrial carrier [103505] (1)
    membrane all-alpha fold; 6-helical "barrel" with internal binding cavity
    1. Mitochondrial carrier [103506] (1)
       duplication: consists of three alpha-hairpin repeats
       uperfamily
40. Chlorophyll a-b binding protein [103510] (1)
    membrane all-alpha fold; three transmembrane helices
    1. Chlorophyll a-b binding protein [103511] (1)
       duplication: contains two structural repeats
       uperfamily
41. MAPEG domain-like [161083] (1)
    4 helices, bundle; left-handed superhelix
    1. MAPEG domain-like [161084] (1)
42. MgtE membrane domain-like [161092] (1)
    5 transmembrane helices; bundle, right-handed twist
    1. MgtE membrane domain-like [161093] (1)
       homodimer, swapped with the N-terminal helices
43. MetI-like [161097] (1)
    core: 5 transmembrane helices; flattened bundle
    1. MetI-like [161098] (1)
44. Rhomboid-like [144090] (1)
    6 transmembrane helices
    1. Rhomboid-like [144091] (1)
       uperfamily
45. Cation efflux protein transmembrane domain-like [161110] (1)
    6 transmembrane helices, bundle
    1. Cation efflux protein transmembrane domain-like [161111] (1)
46. Connexin43 [118219] (1)
    mostly unstructured; 2 helices, hairpin
    1. Connexin43 [118220] (1)
       uperfamily
47. Transmembrane beta-barrels [56924] (6)
    not a true fold, gathers together transmembrane barrels of different (n,S)
    1. OMPA-like [56925] (4)
       forms (8,10) barrel
       uperfamily
    2. OMPT-like [69917] (2)
       forms (10,12) barrel
       uperfamily
    3. Autotransporter [103515] (1)
       forms (12,14) barrel; contains a long alpha-helix running along the barrel axis
       uperfamily
    4. Outer membrane phospholipase A (OMPLA) [56931] (1)
       forms (12,16) barrel
       uperfamily
    5. Porins [56935] (4)
       uperfamily
    6. Tsx-like channel [111364] (1)
       forms (12,16) barrel
       uperfamily
48. Outer membrane efflux proteins (OEP) [56953] (1)
    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
    1. Outer membrane efflux proteins (OEP) [56954] (1)
       uperfamily
49. HlyD-like secretion proteins [111368] (1)
    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)
    1. HlyD-like secretion proteins [111369] (1)
       uperfamily
50. Leukocidin-like [56958] (1)
    subunit fold contains beta-sandwich of Ig-like (grerk-key) topology and a beta-ribbon arm that forms an oligomeric transmembrane barrel
    1. Leukocidin-like [56959] (2)
       uperfamily
51. Lipovitellin-phosvitin complex; beta-sheet shell regions [56967] (1)
    contains several large open beta-sheets
    1. Lipovitellin-phosvitin complex; beta-sheet shell regions [56968] (1)
       uperfamily
52. Aerolisin/ETX pore-forming domain [56972] (1)
    3 domains: (1) alpha+beta; (2&3) all-beta
    1. Aerolisin/ETX pore-forming domain [56973] (2)
       uperfamily
53. Perfringolysin [56977] (1)
    2 domains: (1) alpha+beta; (2) all-beta, similar to the CalB domain fold but the two last strands are transposed
    1. Perfringolysin [56978] (1)
       uperfamily
54. Viral glycoprotein, central and dimerisation domains [56982] (1)
    2 intertwined domains; all-beta and alpha+beta
    1. Viral glycoprotein, central and dimerisation domains [56983] (1)
       uperfamily
55. VP4 membrane interaction domain [111378] (1)
    2 domains; d1: complexed all-beta fold; d2: coiled-coil (trimeric) helical region
    1. VP4 membrane interaction domain [111379] (1)
       uperfamily
56. Head and neck region of the ectodomain of NDV fusion glycoprotein [69921] (1)
    3 intertwined all-beta domains
    1. Head and neck region of the ectodomain of NDV fusion glycoprotein [69922] (1)
       uperfamily
57. OmpH-like [111383] (1)
    trimer; one subunit consists of an alpha/beta oligomerization subdomain [3-stranded parallel beta-sheet, order 213], and an antiparallel coiled coil
    1. OmpH-like [111384] (1)
       uperfamily
58. Anthrax protective antigen [56987] (1)
    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
    1. Anthrax protective antigen [56988] (1)
       uperfamily

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