Structural Classification of Proteins

Superfamily: Ribokinase-like

: has extra strand located between strands 2 and 3
uperfamily

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
Superfamily: Ribokinase-like [53613]
has extra strand located between strands 2 and 3
uperfamily

Families:

Thiamin biosynthesis kinases [53620] (4)
1. Hydroxyethylthiazole kinase (THZ kinase, ThiK) [53621]
  1. Bacillus subtilis [TaxId: 1423] [53622] (5)
    1. 1ekq
      mutant
      1. chain a [34941]
      2. chain b [34942]
    2. 1esj
      complexed with so4; mutant
      1. region a:1-272 [34943]
      2. region b:1-272 [34944]
      3. region c:1-272 [34945]
    3. 1ekk
      complexed with so2, tze; mutant
      1. chain a [34946]
      2. chain b [34947]
    4. 1c3q
      complexed with cl, tze
      1. region a:1-272 [118436]
      2. region b:1-272 [118437]
      3. region c:1-272 [118438]
    5. 1esq
      complexed with atp, mg, so4, thq; mutant
      1. region a:1-272 [34951]
      2. region b:1-271 [34952]
      3. region c:1-272 [34953]
  2. Archaeon Pyrococcus horikoshii [TaxId: 53953] [102637] (1)
    1. 1v8a
      complexed with cl, zn
      1. chain a [100494]
2. 4-amino-5-hydroxymethyl-2-methylpyrimidine phosphate kinase (HMP-phosphate kinase, ThiD) [69589]
  1. Salmonella typhimurium [TaxId: 90371] [69590] (2)
    1. 1jxh
      complexed with so4
      1. chain a [67415]
      2. chain b [67416]
    2. 1jxi
      complexed with hmh, so4
      1. chain a [67417]
      2. chain b [67418]
  2. Thermus thermophilus [TaxId: 274] [89775] (1)
    1. 1ub0
      structural genomics
      complexed with dox, gol, so4
      1. chain a [88394]
YjeF C-terminal domain-like [75292] (2)
1. Hypothetical protein YxkO [75293]
  1. Bacillus subtilis [TaxId: 1423] [75294] (1)
    1. 1kyh
      structural genomics
      complexed with mse
      1. chain a [73222]
2. Hypothetical protein TM0922, C-terminal domain [142707]
  YjeF homolog
  1. Thermotoga maritima [TaxId: 2336] [142708] (1)
    SQ Q9X024 212-489
    1. 2ax3
      complexed with gol
      1. region a:212-489 [127477]
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)
    1. 1lhp
      1. chain a [77960]
      2. chain b [77961]
    2. 1lhr
      complexed with atp, k, zn
      1. chain a [77962]
      2. chain b [77963]
    3. 1rfv
      complexed with adp, zn2
      1. chain a [97409]
      2. chain b [97410]
    4. 1ygj
      automatically matched to d1rfua_
      complexed with rmc
      1. region a:4-312 [123144]
    5. 1rft
      complexed with acp, k, pxm, zn2
      1. chain a [97400]
    6. 1rfu
      complexed with adp, plp, zn2
      1. chain a [97401]
      2. chain b [97402]
      3. chain c [97403]
      4. chain d [97404]
      5. chain e [97405]
      6. chain f [97406]
      7. chain g [97407]
      8. chain h [97408]
    7. 1yhj
      automatically matched to d1rfua_
      complexed with r6c
      1. region a:6-312 [123177]
    8. 1ygk
      automatically matched to d1rfua_
      complexed with rrc
      1. region a:4-312 [123145]
2. Pyridoxamine kinase [102638]
  1. Escherichia coli [TaxId: 562] [102639] (2)
    SQ P77150
    1. 1vi9
      structural genomics
      complexed with bme, so4
      1. chain a [100750]
      2. chain b [100751]
      3. chain c [100752]
      4. chain d [100753]
    2. 1td2
      complexed with pxl, so4
      1. chain a [106765]
      2. chain b [106766]
Ribokinase-like [53614] (13)
1. Ribokinase [53615]
  1. Escherichia coli [TaxId: 562] [53616] (5)
    1. 1rkd
      complexed with adp, po4, rib
      1. chain a [34928]
    2. 1rka
      1. chain a [34929]
    3. 1rk2
      complexed with adp, alf, mg, rib
      1. chain a [34930]
      2. chain b [34931]
      3. chain c [34932]
      4. chain d [34933]
    4. 1rks
      complexed with po4, rib
      1. chain a [34934]
    5. 1gqt
      complexed with acp, cs, rib
      1. chain a [65472]
      2. chain b [65473]
      3. chain c [65474]
      4. chain d [65475]
  2. Thermotoga maritima [TaxId: 2336] [110706] (1)
    SQ Q9X055
    1. 1vm7
      Structural genomics target
      1. chain a [108884]
      2. chain b [108885]
  3. Human (Homo sapiens) [TaxId: 9606] [142709] (2)
    SQ Q9H477 15-322
    1. 2fv7
      complexed with adp, mg, na, unx
      1. region a:15-322 [134197]
    2. 2fv7
      automatically matched to 2FV7 A:15-322
      complexed with adp, mg, na, unx
      1. region b:15-322 [134198]
2. 2-keto-3-deoxygluconate kinase [75295]
  1. Thermotoga maritima, TM0067 [TaxId: 2336] [75296] (2)
    1. 2afb
      automatically matched to d1j5va_
      complexed with ca, ni; mutant
      1. region a:-2-330 [126674]
    2. 2afb
      automatically matched to d1j5va_
      complexed with ca, ni; mutant
      1. region b:0-330 [126675]
  2. Thermus thermophilus [TaxId: 274] [102640] (4)
    1. 1v1a
      structural genomics
      complexed with adp, kdg
      1. chain a [100249]
      2. chain b [100250]
    2. 1v19
      structural genomics
      complexed with dox
      1. chain a [100247]
      2. chain b [100248]
    3. 1v1b
      structural genomics
      complexed with atp
      1. chain a [100251]
      2. chain b [100252]
      3. chain c [100253]
      4. chain d [100254]
    4. 1v1s
      structural genomics
      1. chain a [100256]
      2. chain b [100257]
      3. chain c [100258]
      4. chain d [100259]
      5. chain e [100260]
      6. chain f [100261]
3. Hypothetical protein TM0415 [102641]
  1. Thermotoga maritima [TaxId: 2336] [102642] (1)
    1. 1vk4
      structural genomics
      1. chain a [100850]
4. Putative sugar kinase TM0828 [82518]
  1. Thermotoga maritima [TaxId: 2336] [82519] (2)
    1. 2ajr
      automatically matched to d1o14a_
      complexed with act, mg
      1. region a:1-319 [126892]
    2. 2ajr
      automatically matched to d1o14a_
      complexed with act, mg
      1. region b:1-319 [126893]
5. Adenosine kinase [53617]
  1. Human (Homo sapiens) [TaxId: 9606] [53618] (5)
    1. 1bx4
      complexed with adn, cl, mo4, mo6
      1. chain a [34935]
    2. 2i6a
      automatically matched to d1bx4a_
      complexed with 5i5
      1. region a:4-345 [137091]
    3. 2i6a
      automatically matched to d1bx4a_
      complexed with 5i5
      1. region b:4-345 [137092]
    4. 2i6a
      automatically matched to d1bx4a_
      complexed with 5i5
      1. region c:4-345 [137093]
    5. 2i6a
      automatically matched to d1bx4a_
      complexed with 5i5
      1. region d:4-345 [137094]
  2. Toxoplasma gondii [TaxId: 5811] [53619] (10)
    1. 2abs
      complexed with acp, cl, na; mutant
      1. region a:10-359 [126534]
    2. 2a9y
      automatically matched to 2ABS A:10-359
      complexed with 26a, act, cl, na; mutant
      1. region a:10-359 [126460]
    3. 2a9z
      automatically matched to 2ABS A:10-359
      complexed with 26a, acp, cl, na; mutant
      1. region a:10-359 [126461]
    4. 2ab8
      automatically matched to 2ABS A:10-359
      complexed with acp, cl, mtp, na; mutant
      1. region a:10-359 [126515]
    5. 2aa0
      automatically matched to 2ABS A:10-359
      complexed with act, cl, mtp, na; mutant
      1. region a:10-359 [126462]
    6. 1dgm
      complexed with acy, adn, cl, mg; mutant
      1. chain a [34936]
    7. 1lii
      complexed with acp, adn, cl, mg
      1. chain a [73921]
    8. 1lij
      complexed with acp, cl, mg, rpp
      1. chain a [73922]
    9. 1lik
      complexed with adn, cl, so4
      1. chain a [73923]
    10. 1lio
      1. chain a [73924]
6. Aminoimidazole riboside kinase [117720]
  1. Salmonella typhimurium [TaxId: 90371] [117721] (3)
    SQ Q8ZKR2
    1. 1tyy
      complexed with k
      1. chain a [112850]
      2. chain b [112851]
    2. 1tz6
      complexed with acp, ais, k, mg
      1. chain a [112862]
      2. chain b [112863]
    3. 1tz3
      complexed with ais, k
      1. chain a [112860]
      2. chain b [112861]
7. Tagatose-6-phosphate kinase LacC [142710]
  1. Enterococcus faecalis [TaxId: 1351] [142711] (4)
    SQ Q833W9 1-313
    1. 2f02
      automatically matched to 2AWD A:1-313
      complexed with atp
      1. region a:1-313 [132649]
    2. 2f02
      automatically matched to 2AWD A:1-313
      complexed with atp
      1. region b:1-313 [132650]
    3. 2awd
      complexed with br
      1. region a:1-313 [127430]
    4. 2awd
      automatically matched to 2AWD A:1-313
      complexed with br
      1. region b:1-312 [127431]
8. Fructose 1-phosphate kinase FruB [142712]
  1. Bacillus halodurans [TaxId: 86665] [142713] (2)
    SQ Q9KEM5 1-306
    1. 2abq
      complexed with po4
      1. region a:1-306 [126528]
    2. 2abq
      automatically matched to 2ABQ A:1-306
      complexed with po4
      1. region b:1-306 [126529]
9. Hypothetical fructokinase ST2478 [142714]
  1. Sulfolobus tokodaii [TaxId: 111955] [142715] (18)
    SQ Q96XN9 2-309
    1. 2dcn
      complexed with adp, ckp, k, mg
      1. region a:2-309 [131374]
    2. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region b:2-309 [131375]
    3. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region c:2-309 [131376]
    4. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region d:2-309 [131377]
    5. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region e:2-309 [131378]
    6. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region f:2-309 [131379]
    7. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region g:2-309 [131380]
    8. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region h:2-309 [131381]
    9. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region i:2-309 [131382]
    10. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region j:2-309 [131383]
    11. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region k:2-309 [131384]
    12. 2dcn
      automatically matched to 2DCN A:2-309
      complexed with adp, ckp, k, mg
      1. region l:2-309 [131385]
    13. 1wye
      automatically matched to 2DCN A:2-309
      1. region a:2-309 [121438]
    14. 1wye
      automatically matched to 2DCN A:2-309
      1. region b:2-309 [121439]
    15. 1wye
      automatically matched to 2DCN A:2-309
      1. region c:2-309 [121440]
    16. 1wye
      automatically matched to 2DCN A:2-309
      1. region d:2-309 [121441]
    17. 1wye
      automatically matched to 2DCN A:2-309
      1. region e:2-309 [121442]
    18. 1wye
      automatically matched to 2DCN A:2-309
      1. region f:2-309 [121443]
ADP-specific Phosphofructokinase/Glucokinase [64147] (3)
Pfam 04587
1. ADP-dependent glucokinase [64148]
  1. Archaeon Thermococcus litoralis [TaxId: 2265] [64149] (2)
    1. 1l2l
      1. chain a [77656]
    2. 1gc5
      complexed with adp
      1. chain a [60429]
  2. Archaeon Pyrococcus furiosus [TaxId: 2261] [102643] (1)
    1. 1ua4
      complexed with amp, glc
      1. chain a [99128]
2. ADP-specific phosphofructokinase [110707]
  1. Pyrococcus horikoshii [TaxId: 53953] [110708] (1)
    SQ O59355 # PH1645
    1. 1u2x
      complexed with so4
      1. chain a [107622]
      2. chain b [107623]