Structural Classification of Proteins

Fold: Ribokinase-like

: core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest
potential superfamily: members of this fold have similar functions but different ATP-binding sites

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: Ribokinase-like [53612]
core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest
potential superfamily: members of this fold have similar functions but different ATP-binding sites

Superfamilies:

Ribokinase-like [53613] (5)
has extra strand located between strands 2 and 3
uperfamily
1. Thiamin biosynthesis kinases [53620] (4)
  1. Hydroxyethylthiazole kinase (THZ kinase, ThiK) [53621]
    1. Bacillus subtilis [TaxId: 1423] [53622] (5)
    2. Archaeon Pyrococcus horikoshii [TaxId: 53953] [102637] (1)
  2. 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD) [69589]
    1. Salmonella typhimurium [TaxId: 90371] [69590] (2)
    2. Thermus thermophilus [TaxId: 274] [89775] (1)
2. YjeF C-terminal domain-like [75292] (2)
  1. Hypothetical protein YxkO [75293]
    1. Bacillus subtilis [TaxId: 1423] [75294] (1)
  2. Hypothetical protein TM0922, C-terminal domain [142707]
    YjeF homolog
    1. Thermotoga maritima [TaxId: 2336] [142708] (1)
      SQ Q9X024 212-489
3. PfkB-like kinase [82515] (2)
  includes a variety of carbohydrate and pyrimidine kinases
  1. Pyridoxal kinase [82516]
    1. Sheep (Ovis aries) [TaxId: 9940] [82517] (8)
  2. Pyridoxamine kinase [102638]
    1. Escherichia coli [TaxId: 562] [102639] (2)
      SQ P77150
4. Ribokinase-like [53614] (13)
  1. Ribokinase [53615]
    1. Escherichia coli [TaxId: 562] [53616] (5)
    2. Thermotoga maritima [TaxId: 2336] [110706] (1)
      SQ Q9X055
    3. Human (Homo sapiens) [TaxId: 9606] [142709] (2)
      SQ Q9H477 15-322
  2. 2-keto-3-deoxygluconate kinase [75295]
    1. Thermotoga maritima, TM0067 [TaxId: 2336] [75296] (2)
    2. Thermus thermophilus [TaxId: 274] [102640] (4)
  3. Hypothetical protein TM0415 [102641]
    1. Thermotoga maritima [TaxId: 2336] [102642] (1)
  4. Putative sugar kinase TM0828 [82518]
    1. Thermotoga maritima [TaxId: 2336] [82519] (2)
  5. Adenosine kinase [53617]
    1. Human (Homo sapiens) [TaxId: 9606] [53618] (5)
    2. Toxoplasma gondii [TaxId: 5811] [53619] (10)
  6. Aminoimidazole riboside kinase [117720]
    1. Salmonella typhimurium [TaxId: 90371] [117721] (3)
      SQ Q8ZKR2
  7. Tagatose-6-phosphate kinase LacC [142710]
    1. Enterococcus faecalis [TaxId: 1351] [142711] (4)
      SQ Q833W9 1-313
  8. Fructose 1-phosphate kinase FruB [142712]
    1. Bacillus halodurans [TaxId: 86665] [142713] (2)
      SQ Q9KEM5 1-306
  9. Hypothetical fructokinase ST2478 [142714]
    1. Sulfolobus tokodaii [TaxId: 111955] [142715] (18)
      SQ Q96XN9 2-309
5. ADP-specific Phosphofructokinase/Glucokinase [64147] (3)
  Pfam 04587
  1. ADP-dependent glucokinase [64148]
    1. Archaeon Thermococcus litoralis [TaxId: 2265] [64149] (2)
    2. Archaeon Pyrococcus furiosus [TaxId: 2261] [102643] (1)
  2. ADP-specific phosphofructokinase [110707]
    1. Pyrococcus horikoshii [TaxId: 53953] [110708] (1)
      SQ O59355 # PH1645
MurD-like peptide ligases, catalytic domain [53623] (2)
has extra strand located between strands 1 and 2
uperfamily
1. MurCDEF [53624] (5)
  1. UDP-N-acetylmuramate-alanine ligase MurC [82520]
    1. Thermotoga maritima [TaxId: 2336] [82521] (1)
      TM0231
    2. Haemophilus influenzae [TaxId: 727] [89776] (4)
  2. UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase MurD [53625]
    1. Escherichia coli [TaxId: 562] [53626] (11)
  3. UDP-N-acetylmuramyl tripeptide synthetase MurE [64150]
    1. Escherichia coli [TaxId: 562] [64151] (1)
  4. UDP-murNac-tripeptide D-alanyl-D-alanine-adding enzyme MurF [53627]
    1. Escherichia coli [TaxId: 562] [53628] (1)
2. Folylpolyglutamate synthetase [53629] (2)
  1. Folylpolyglutamate synthetase [53630]
    1. Lactobacillus casei [TaxId: 1582] [53631] (7)
    2. Thermotoga maritima [TaxId: 2336] [102644] (1)
      TM0166
CoaB-like [102645] (1)
combination of the Rossmann-like and Ribokinase-like topologies; mixed beta-sheet of 8 strands, order 32145678, strand 7 is antiparallel to the rest
uperfamily
1. CoaB-like [102646] (2)
  Pfam 04127
  1. Phosphopantothenoylcysteine synthetase [102647]
    1. Human (Homo sapiens) [TaxId: 9606] [102648] (1)
  2. Coenzyme A biosynthesis bifunctional protein CoaBC, phosphopantothenoylcysteine synthase domain (CoaB) [117722]
    1. Escherichia coli [TaxId: 562] [117723] (4)
      SQ P24285 181-404