Lineage for Fold c.1: TIM beta/alpha-barrel

  1. Root: SCOP 1.69
  2. 473232Class c: Alpha and beta proteins (a/b) [51349] (136 folds)
  3. 473233Fold c.1: TIM beta/alpha-barrel [51350] (31 superfamilies)
    contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678
    the first seven superfamilies have similar phosphate-binding sites

Superfamilies:

  1. 473234c.1.1: Triosephosphate isomerase (TIM) [51351] (1 family) (S)
  2. 473421c.1.2: Ribulose-phoshate binding barrel [51366] (4 families) (S)
  3. 473625c.1.3: Thiamin phosphate synthase [51391] (1 family) (S)
  4. 473648c.1.4: FMN-linked oxidoreductases [51395] (1 family) (S)
  5. 473823c.1.5: Inosine monophosphate dehydrogenase (IMPDH) [51412] (1 family) (S)
    The phosphate moiety of substrate binds in the 'common' phosphate-binding site
  6. 473860c.1.6: PLP-binding barrel [51419] (2 families) (S)
    circular permutation of the canonical fold: begins with an alpha helix and ends with a beta-strand
  7. 473932c.1.7: NAD(P)-linked oxidoreductase [51430] (1 family) (S)
  8. 474052c.1.8: (Trans)glycosidases [51445] (11 families) (S)
  9. 475145c.1.9: Metallo-dependent hydrolases [51556] (13 families) (S)
    the beta-sheet barrel is similarly distorted and capped by a C-terminal helix
    has transition metal ions bound inside the barrel
  10. 475345c.1.10: Aldolase [51569] (6 families) (S)
    Common fold covers whole protein structure
  11. 475826c.1.11: Enolase C-terminal domain-like [51604] (2 families) (S)
    binds metal ion (magnesium or manganese) in conserved site inside barrel
    N-terminal alpha+beta domain is common to this family
  12. 475982c.1.12: Phosphoenolpyruvate/pyruvate domain [51621] (6 families) (S)
  13. 476185c.1.13: Malate synthase G [51645] (1 family) (S)
  14. 476196c.1.14: RuBisCo, C-terminal domain [51649] (1 family) (S)
  15. 476306c.1.15: Xylose isomerase-like [51658] (6 families) (S)
    different families share similar but non-identical metal-binding sites
  16. 476505c.1.16: Bacterial luciferase-like [51679] (4 families) (S)
    consists of clearly related families of somewhat different folds
  17. 476547c.1.17: Quinolinic acid phosphoribosyltransferase (Nicotinate-nucleotide pyrophosphorylase, NadC), C-terminal domain [51690] (1 family) (S)
    incomplete beta/alpha barrel with parallel beta-sheet of 7 strands
  18. 476581c.1.18: PLC-like phosphodiesterases [51695] (3 families) (S)
  19. 476630c.1.19: Cobalamin (vitamin B12)-dependent enzymes [51703] (3 families) (S)
  20. 476697c.1.20: tRNA-guanine transglycosylase [51713] (1 family) (S)
  21. 476741c.1.21: Dihydropteroate synthetase-like [51717] (2 families) (S)
  22. 476785c.1.22: UROD/MetE-like [51726] (2 families) (S)
  23. 476813c.1.23: FAD-linked oxidoreductase [51730] (2 families) (S)
    distinct cofactor-binding mode from both FMN- and NAD(P)-linked TIM-barrel oxidoreductases; families are related by a circular permutation
  24. 476826c.1.24: Pyridoxine 5'-phosphate synthase [63892] (1 family) (S)
  25. 476862c.1.25: Monomethylamine methyltransferase MtmB [75098] (1 family) (S)
  26. 476868c.1.26: Homocysteine S-methyltransferase [82282] (1 family) (S)
  27. 476895c.1.27: (2r)-phospho-3-sulfolactate synthase ComA [102110] (1 family) (S)
  28. 476902c.1.28: Radical SAM enzymes [102114] (3 families) (S)
    common Fe-S cluster and SAM binding sites are embedded into complete or incomplete beta/alpha-barrel
  29. 476919c.1.29: GlpP-like [110391] (1 family) (S)
  30. 476927c.1.30: CutC-like (Pfam 03932) [110395] (1 family) (S)
  31. 476933c.1.31: ThiG-like (Pfam 05690) [110399] (1 family) (S)
    shares the common phosphate-binding site with other superfamilies

More info for Fold c.1: TIM beta/alpha-barrel

Timeline for Fold c.1: TIM beta/alpha-barrel: