Class c: Alpha and beta proteins (a/b) [51349] (148 folds) |
Fold c.1: TIM beta/alpha-barrel [51350] (33 superfamilies) contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 the first seven superfamilies have similar phosphate-binding sites |
c.1.1: Triosephosphate isomerase (TIM) [51351] (2 families) |
c.1.2: Ribulose-phoshate binding barrel [51366] (7 families) |
c.1.3: Thiamin phosphate synthase [51391] (2 families) automatically mapped to Pfam PF02581 |
c.1.4: FMN-linked oxidoreductases [51395] (2 families) |
c.1.5: Inosine monophosphate dehydrogenase (IMPDH) [51412] (2 families) The phosphate moiety of substrate binds in the 'common' phosphate-binding site |
c.1.6: PLP-binding barrel [51419] (2 families) circular permutation of the canonical fold: begins with an alpha helix and ends with a beta-strand |
c.1.7: NAD(P)-linked oxidoreductase [51430] (2 families) |
c.1.8: (Trans)glycosidases [51445] (15 families) |
c.1.9: Metallo-dependent hydrolases [51556] (19 families) the beta-sheet barrel is similarly distorted and capped by a C-terminal helix has transition metal ions bound inside the barrel |
c.1.10: Aldolase [51569] (9 families) Common fold covers whole protein structure |
c.1.11: Enolase C-terminal domain-like [51604] (3 families) binds metal ion (magnesium or manganese) in conserved site inside barrel N-terminal alpha+beta domain is common to this superfamily |
c.1.12: Phosphoenolpyruvate/pyruvate domain [51621] (8 families) |
c.1.13: Malate synthase G [51645] (1 family) |
c.1.14: RuBisCo, C-terminal domain [51649] (2 families) automatically mapped to Pfam PF00016 |
c.1.15: Xylose isomerase-like [51658] (8 families) different families share similar but non-identical metal-binding sites |
c.1.16: Bacterial luciferase-like [51679] (5 families) consists of clearly related families of somewhat different folds |
c.1.17: Nicotinate/Quinolinate PRTase C-terminal domain-like [51690] (3 families) incomplete beta/alpha barrel with parallel beta-sheet of 7 strands |
c.1.18: PLC-like phosphodiesterases [51695] (4 families) |
c.1.19: Cobalamin (vitamin B12)-dependent enzymes [51703] (4 families) |
c.1.20: tRNA-guanine transglycosylase [51713] (1 family) |
c.1.21: Dihydropteroate synthetase-like [51717] (3 families) |
c.1.22: UROD/MetE-like [51726] (3 families) |
c.1.23: FAD-linked oxidoreductase [51730] (3 families) distinct cofactor-binding mode from both FMN- and NAD(P)-linked TIM-barrel oxidoreductases; families are related by a circular permutation |
c.1.24: Pyridoxine 5'-phosphate synthase [63892] (2 families) |
c.1.25: Monomethylamine methyltransferase MtmB [75098] (1 family) automatically mapped to Pfam PF05369 |
c.1.26: Homocysteine S-methyltransferase [82282] (1 family) |
c.1.27: (2r)-phospho-3-sulfolactate synthase ComA [102110] (1 family) automatically mapped to Pfam PF02679 |
c.1.28: Radical SAM enzymes [102114] (3 families) common Fe-S cluster and SAM binding sites are embedded into complete or incomplete beta/alpha-barrel |
c.1.29: GlpP-like [110391] (1 family) automatically mapped to Pfam PF04309 |
c.1.30: CutC-like [110395] (2 families) automatically mapped to Pfam PF03932 |
c.1.31: ThiG-like [110399] (2 families) shares the common phosphate-binding site with other superfamilies |
c.1.32: TM1631-like [117396] (1 family) automatically mapped to Pfam PF01904 |
c.1.33: EAL domain-like [141868] (1 family) variant of the beta/alpha-barrel fold with strand 1 being antiparallel to the rest automatically mapped to Pfam PF00563 |
Timeline for Fold c.1: TIM beta/alpha-barrel: