Structural Classification of Proteins

Fold: lambda repressor-like DNA-binding domains

: core: 4 helices; folded leaf, closed

Lineage:

Root: scop
Class: All alpha proteins [46456]
Fold: lambda repressor-like DNA-binding domains [47412]
core: 4 helices; folded leaf, closed

Superfamilies:

lambda repressor-like DNA-binding domains [47413] (13)
uperfamily
1. POU-specific domain [47414] (3)
  1. Oct-1 [47415]
    canonical 4-helical fold
    1. Human (Homo sapiens) [TaxId: 9606] [47416] (7)
  2. Pit-1 [47417]
    1. Rat (Rattus norvegicus) [TaxId: 10116] [47418] (1)
  3. Hepatocyte nuclear factor 1a (LFB1/HNF1) [81748]
    atypical POU domain with extra N-terminal helix
    1. Human (Homo sapiens) [TaxId: 9606] [81749] (1)
2. Phage repressors [47419] (7)
  consists of different sequence families of HTH repressors of phage origins
  1. lambda C1 repressor, DNA-binding domain [47420]
    1. Bacteriophage lambda [TaxId: 10710] [47421] (6)
  2. 434 C1 repressor, DNA-binding domain [47422]
    1. Bacteriophage 434 [TaxId: 10712] [47423] (8)
      SQ P16117 10-62; contains a short additional helix at C-terminus
  3. cro 434 [47424]
    1. Bacteriophage 434 [TaxId: 10712] [47425] (3)
      contains a short additional helix at C-terminus
  4. P22 C2 repressor, DNA-binding domain [47426]
    1. Salmonella bacteriophage P22 [TaxId: 10754] [47427] (3)
      contains a short additional helix at C-terminus
  5. cro lambda repressor [47428]
    the fourth helix is replaced with a beta hairpin
    3 helices; folded leaf, opened
    1. Bacteriophage lambda [TaxId: 10710] [47429] (9)
  6. Ner [47430]
    1. Bacteriophage mu [TaxId: 10677] [47431] (2)
  7. cro p22 [109809]
    1. Bacteriophage p22 [TaxId: 10754] [109810] (1)
      SQ P09964
3. SinR domain-like [47432] (8)
  1. SinR repressor, DNA-binding domain [47433]
    1. Bacillus subtilis [TaxId: 1423] [47434] (1)
  2. Putative transcription regulator CylR2 [109811]
    1. Enterococcus faecalis [TaxId: 1351] [109812] (3)
      SQ Q8VL32
  3. Regulatory protein C.BclI [140512]
    1. Bacillus caldolyticus [TaxId: 1394] [140513] (4)
  4. Restriction-modification controller protein C.AhdI [140514]
    1. Aeromonas hydrophila [TaxId: 644] [140515] (2)
      SQ Q7X0F0 5-73
  5. Hydroxypropylphosphonic acid epoxidase Fom4, N-terminal domain [140516]
    1. Streptomyces wedmorensis [TaxId: 43759] [140517] (20)
      SQ Q56185 6-76
  6. Putative transcriptional regulator RHA1_ro04071 [158461]
    1. Rhodococcus sp. RHA1 [TaxId: 101510] [158462] (2)
      SQ Q0S9B8 3-84
  7. Uncharacterized protein Atu1735 [158463]
    1. Agrobacterium tumefaciens [TaxId: 358] [158464] (1)
      SQ Q8UEM2 30-91
  8. Antitoxin HigA [158465]
    Uncharacterized transcriptional regulator YddM
    1. Escherichia coli [TaxId: 562] [158466] (2)
      SQ P67699 8-94
4. Cyanase N-terminal domain [47435] (1)
  probably does not bind to DNA
  1. Cyanase N-terminal domain [47436]
    1. Escherichia coli [TaxId: 562] [47437] (22)
5. GalR/LacI-like bacterial regulator [47438] (4)
  lacks the first helix of canonical fold
  3 helices; bundle, partly opened, right-handed twist
  1. Purine repressor (PurR), N-terminal domain [47439]
    1. Escherichia coli [TaxId: 562] [47440] (24)
  2. Lac repressor (LacR), N-terminal domain [47441]
    1. Escherichia coli [TaxId: 562] [47442] (14)
  3. Fructose repressor (FruR), N-terminal domain [47443]
    1. Escherichia coli [TaxId: 562] [47444] (2)
  4. Glucose-resistance amylase regulator CcpA, N-terminal domain [116889]
    1. Bacillus megaterium [TaxId: 1404] [116890] (5)
      SQ P46828
6. YdiL-like [109813] (2)
  contains extra C-terminal all-alpha dimerization subdomain; the dimer may bind DNA
  1. Putative cytoplasmic protein YdiL [109814]
    1. Salmonella typhimurium [TaxId: 90371] [109815] (1)
      SQ Q8ZPR1
  2. Hypothetical protein SO3848 [158467]
    1. Shewanella oneidensis [TaxId: 70863] [158468] (1)
      SQ Q8EAP9 5-166
7. CUT domain [116891] (4)
  Pfam 02376
  1. Homeobox protein Cux-2, CUTL2 [116892]
    1. Human (Homo sapiens) [TaxId: 9606] [116893] (3)
      SQ O14529 825-912; 966-1063
  2. DNA-binding protein SATB2 [116894]
    1. Human (Homo sapiens) [TaxId: 9606] [116895] (2)
      SQ Q9UPW6 350-437; the structure of a homedomain (615-672) is also known: 1WI3
  3. Hepatocyte nuclear factor 6 [116896]
    1. Mouse (Mus musculus) [TaxId: 10090] [116897] (1)
      SQ O08755 291-437
  4. DNA-binding protein SATB1 [140518]
    1. Human (Homo sapiens) [TaxId: 9606] [140519] (3)
      SQ Q01826 368-455
8. Probable transcriptional regulator VC1968, N-terminal domain [116898] (1)
  1. Probable transcriptional regulator VC1968, N-terminal domain [116899]
    1. Vibrio cholerae [TaxId: 666] [116900] (1)
      SQ Q9KQN0
9. Bacteriophage CII protein [140520] (1)
  Pfam 05269; a compact helix-swapped dimer of the canonical fold; includes the extra C-terminal teramerisation region (alpha-helix); in the tetramer-DNA complex only two of the four HTH motifs interact with DNA
  1. Regulatory protein cII [140521]
    1. Bacteriophage lambda [TaxId: 10710] [140522] (12)
      SQ P03042 2-80! SQ P03042 4-81
10. NE0471 C-terminal domain-like [140523] (1)
  1. Hypothetical protein NE0471 C-terminal domain [140524]
    1. Nitrosomonas europaea [TaxId: 915] [140525] (2)
      SQ Q82X29 88-154
11. PrgX N-terminal domain-like [140526] (1)
  Part of Pfam 01381
  1. PrgX [140527]
    possibly involved in pheromone-inducible conjugation
    1. Enterococcus faecalis [TaxId: 1351] [140528] (40)
      SQ Q04114 1-69! SQ Q04114 2-66
12. EDF1-like [140529] (1)
  part of Pfam 01381
  1. Endothelial differentiation-related factor 1, EDF1 [140530]
    1. Human (Homo sapiens) [TaxId: 9606] [140531] (1)
      SQ O60869 71-148
13. NE1354 [140532] (2)
  contains extra C-terminal dimerisation arm (beta-strand)
  1. HTH-motif protein NE1354 [140533]
    1. Nitrosomonas europaea [TaxId: 915] [140534] (2)
      SQ Q82UW4 1-69
  2. Hypothetical protein RPA3824 [158469]
    1. Rhodopseudomonas palustris [TaxId: 1076] [158470] (2)
      SQ Q6N370 28-116