Structural Classification of Proteins

Fold: NagB/RpiA/CoA transferase-like

: core: 3 layers: a/b/a; parallel or mixed beta-sheet of 6 strands, order 321456

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: NagB/RpiA/CoA transferase-like [100949]
core: 3 layers: a/b/a; parallel or mixed beta-sheet of 6 strands, order 321456

Superfamilies:

NagB/RpiA/CoA transferase-like [100950] (8)
uperfamily
1. NagB-like [52513] (3)
  share a common phosphate-binding site with the RpiA family
  1. Glucosamine 6-phosphate deaminase/isomerase NagB [52514]
    1. Escherichia coli [TaxId: 562] [52515] (10)
    2. Human (Homo sapiens) [TaxId: 9606] [102320] (1)
  2. 6-phosphogluconolactonase [102321]
    1. Thermotoga maritima [TaxId: 2336] [102322] (2)
      SQ Q9X0N8 # TM1154
2. D-ribose-5-phosphate isomerase (RpiA), catalytic domain [75176] (4)
  share a common phosphate-binding site with the NagB-like family; part of sheet is folded upon itself and forms a barrel-like structure like the CoA transferase subunits
  1. D-ribose-5-phosphate isomerase (RpiA), catalytic domain [75177]
    1. Escherichia coli [TaxId: 562] [75178] (3)
    2. Haemophilus influenzae [TaxId: 727] [82391] (1)
    3. Archaeon Pyrococcus horikoshii [TaxId: 53953] [75179] (2)
    4. Thermus thermophilus [TaxId: 274] [110512] (3)
      SQ Q72J47
3. CoA transferase beta subunit-like [74657] (3)
  catalytic subunit: similar active site structure to the NagB and RpiA families; mixed beta-sheet of 7 strands, order 4321567; strand 3 is antiparallel to the rest
  1. Glutaconate:CoA transferase beta [53320]
    1. Acidaminococcus fermentans [TaxId: 905] [53321] (1)
  2. Succinate:CoA transferase, C-terminal domain [82466]
    1. Pig (Sus scrofa) [TaxId: 9823] [82467] (13)
  3. Putative enzyme YdiF C-terminal domain [142194]
    1. Escherichia coli [TaxId: 562] [142195] (12)
      SQ P37766 283-529
4. CoA transferase alpha subunit-like [74656] (6)
  parallel beta-sheet of 7 strands, order 4321567
  1. Glutaconate:CoA transferase alpha [53318]
    1. Acidaminococcus fermentans [TaxId: 905] [53319] (1)
  2. Acetate:CoA transferase alpha [75257]
    1. Escherichia coli [TaxId: 562] [75258] (1)
  3. Succinate:CoA transferase, N-terminal domain [82464]
    1. Pig (Sus scrofa) [TaxId: 9823] [82465] (13)
  4. Putative citrate lyase alpha chain, citF2 [117515]
    duplication: consists of two topologically similar domains
    1. Salmonella typhimurium [TaxId: 90371] [117516] (1)
      SQ Q8ZRY1
  5. Acetyl-CoA hydrolase (PA5445) [142196]
    duplication: consists of two topologically similar domains; overall similarity to CitF2
    1. Pseudomonas aeruginosa [TaxId: 287] [142197] (4)
      SQ Q9HTC2 224-497! SQ Q9HTC2 3-223
  6. Putative enzyme YdiF N-terminal domain [142198]
    1. Escherichia coli [TaxId: 562] [142199] (12)
      SQ P37766 4-276
5. IF2B-like [110513] (5)
  Pfam 01008; contains extra N-terminal alpha+beta domain (1-126); beta(3)-alpha(5); 3 layers: b/a/a
  1. Probable methylthioribose-1-phosphate isomerase TM0911 [110514]
    1. Thermotoga maritima [TaxId: 2336] [110515] (1)
      SQ Q9X013
  2. Putative methylthioribose-1-phosphate isomerase Ypr118W [110516]
    1. Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932] [110517] (1)
      SQ Q06489
  3. Putative eIF-2B delta-subunit [110518]
    1. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [110519] (1)
      SQ O29877 # AF0370
  4. Putative eIF-2B subunit 2-like protein PH0440 [117517]
    1. Pyrococcus horikoshii [TaxId: 53953] [117518] (1)
      SQ O58185
  5. Initiation factor 2b [159543]
    1. Leishmania major [TaxId: 5664] [159544] (2)
      SQ Q4Q0R9 133-506,133-506
6. Methenyltetrahydrofolate synthetase [110520] (3)
  Pfam 01812; 5-FTHF cyclo-ligase
  1. Hypothetical protein aq_1731 [110521]
    1. Aquifex aeolicus [TaxId: 63363] [110522] (1)
      SQ O67621
  2. 5,10-methenyltetrahydrofolate synthetase homolog MPN348 [110523]
    1. Mycoplasma pneumoniae [TaxId: 2104] [110524] (3)
      SQ P75430
  3. Hypothetical protein TTHA1611 [117519]
    1. Thermus thermophilus [TaxId: 274] [117520] (1)
      SQ Q5SHW9 1-175
7. YkgG-like [142200] (1)
  Pfam 02589; DUF162
  1. Hypothetical protein DR1909 [142201]
    1. Deinococcus radiodurans [TaxId: 1299] [142202] (1)
      SQ Q9RT57 38-212
8. SorC sugar-binding domain-like [159545] (5)
  Pfam 04198
  1. Transcriptional regulator PSPTO2395 [159546]
    1. Pseudomonas syringae [TaxId: 317] [159547] (1)
      SQ Q883G8 59-316
  2. Transcriptional regulator SP0247 [159548]
    1. Streptococcus pneumoniae [TaxId: 1313] [159549] (1)
      SQ Q97SS7 56-317
  3. Transcriptional regulator EF1965 [159550]
    1. Enterococcus faecalis [TaxId: 1351] [159551] (1)
      SQ Q833I7 95-341
  4. Sor-operon regulator SorC [159552]
    1. Shigella flexneri [TaxId: 623] [159553] (4)
      SQ Q83PA8 61-315
  5. Central glycolytic gene regulator CggR [159554]
    formerly hypothetical protein YvbQ
    1. Bacillus subtilis [TaxId: 1423] [159555] (10)
      SQ O32253 89-338