Structural Classification of Proteins

Fold: Ferritin-like

: core: 4 helices; bundle, closed, left-handed twist; 1 crossover connection

Lineage:

Root: scop
Class: All alpha proteins [46456]
Fold: Ferritin-like [47239]
core: 4 helices; bundle, closed, left-handed twist; 1 crossover connection

Superfamilies:

Ferritin-like [47240] (9)
contains bimetal-ion centre in the middle of the bundle
uperfamily
1. Ferritin [47241] (34)
  1. Rubrerythrin, N-terminal domain [47242]
    1. Desulfovibrio vulgaris [TaxId: 881] [47243] (10)
      SQ P24931
    2. Archaeon Pyrococcus furiosus [TaxId: 2261] [101129] (3)
  2. Hypothetical rubrerythrin [101130]
    1. Archaeon Sulfolobus tokodaii [TaxId: 111955] [101131] (1)
  3. Hypothetical protein TM1526 [101132]
    1. Thermotoga maritima [TaxId: 2336] [101133] (1)
  4. Bacterioferritin (cytochrome b1) [47244]
    binds heme between two subunits; 24-mer
    1. Escherichia coli [TaxId: 562] [47245] (20)
    2. Rhodobacter capsulatus [TaxId: 1061] [69004] (1)
    3. Desulfovibrio desulfuricans [TaxId: 876] [89025] (3)
    4. Azotobacter vinelandii [TaxId: 354] [140431] (24)
      SQ P22759 1-155
  5. Non-hem ferritin [63524]
    1. Escherichia coli, FtnA [TaxId: 562] [63525] (1)
    2. Campylobacter jejuni [TaxId: 197] [69005] (1)
    3. Thermotoga maritima [TaxId: 2336] [109783] (1)
      SQ Q9X0L2
    4. Archaeon Archaeoglobus fulgidus [TaxId: 2234] [140432] (24)
      SQ O29424 3-164
  6. Dodecameric ferritin homolog [47250]
    1. Escherichia coli, Dps [TaxId: 562] [47251] (7)
      ferritin homolog that binds to and protects DNA
    2. Listeria innocua [TaxId: 1642] [47252] (43)
    3. Bacillus anthracis, Dlp-1 [TaxId: 1392] [74705] (1)
    4. Bacillus anthracis, Dlp-2 [TaxId: 1392] [74706] (1)
    5. Bacillus brevis, Dps [TaxId: 1393] [89026] (1)
    6. Agrobacterium tumefaciens, Dps [TaxId: 358] [89027] (1)
    7. Helicobacter pylori, Nap [TaxId: 210] [81743] (1)
    8. Streptococcus suis [TaxId: 1307] [101134] (37)
    9. Archaeon Halobacterium salinarum [TaxId: 2242] [101135] (5)
      SQ Q9HMP7
    10. Mycobacterium smegmatis [TaxId: 1772] [109784] (20)
      SQ Q8VP75
    11. Lactococcus lactis, DpsB [TaxId: 1358] [140433] (12)
      SQ A2RJ45 3-173
    12. Lactococcus lactis, DpsA [TaxId: 1358] [140434] (4)
      SQ A2RLG8 6-173
    13. Treponema pallidum, TpF1 [TaxId: 160] [140435] (16)
      SQ P16665 26-176
  7. (Apo)ferritin [47246]
    1. Human (Homo sapiens), H chain [TaxId: 9606] [47247] (3)
    2. Horse (Equus caballus), L chain [TaxId: 9796] [47248] (20)
    3. Mouse (Mus musculus) [TaxId: 10090] [63526] (2)
    4. Bullfrog (Rana catesbeiana) [TaxId: 8400] [47249] (7)
    5. Human (Homo sapiens), mitocondial isoform [TaxId: 9606] [109785] (1)
      SQ Q8N4E7
    6. Cabbage looper(Trichoplusia ni), L chain [TaxId: 7111] [140436] (12)
      SQ Q52SA8 1-200
    7. Cabbage looper(Trichoplusia ni), H chain [TaxId: 7111] [140437] (12)
      SQ Q8WQX3 21-211
  8. Hypothetical protein PF1190 [140438]
    significant sequence similarity to the half-ferritin family
    1. Archaeon Pyrococcus furiosus [TaxId: 2261] [140439] (2)
      SQ Q8U1L6 9-166
  9. Nigerythrin, N-terminal domain [140440]
    1. Desulfovibrio vulgaris [TaxId: 881] [140441] (6)
      SQ P30820 1-166
2. Ribonucleotide reductase-like [47253] (18)
  1. Methane monooxygenase hydrolase alpha subunit [88789]
    1. Methylococcus capsulatus [TaxId: 414] [88790] (43)
    2. Methylosinus trichosporium [TaxId: 426] [88791] (2)
  2. Methane monooxygenase hydrolase beta subunit [88792]
    1. Methylococcus capsulatus [TaxId: 414] [88793] (31)
    2. Methylosinus trichosporium [TaxId: 426] [88794] (2)
  3. Ribonucleotide reductase R2 [47257]
    1. Escherichia coli [TaxId: 562] [47258] (24)
    2. Salmonella typhimurium [TaxId: 90371] [47259] (4)
    3. Corynebacterium ammoniagenes [TaxId: 1697] [69006] (6)
    4. Mouse (Mus musculus) [TaxId: 10090] [47260] (5)
      SQ P11157
    5. Baker's yeast (Saccharomyces cerevisiae), Y2 [TaxId: 4932] [88795] (2)
      SQ P09938
    6. Baker's yeast (Saccharomyces cerevisiae), Y4 [TaxId: 4932] [88796] (2)
      SQ P49723
    7. Chlamydia trachomatis [TaxId: 813] [109786] (1)
      SQ O84835
    8. Mycobacterium tuberculosis [TaxId: 1773] [109787] (1)
      SQ Q50549 10-291
    9. Human (Homo sapiens), RRM2 [TaxId: 9606] [158401] (1)
      SQ P31350 66-350
  4. delta 9-stearoyl-acyl carrier protein desaturase [47261]
    1. Castor bean (Ricinus communis) [TaxId: 3988] [47262] (5)
  5. Phenylacetic acid degradation protein PaaC [101136]
    1. Escherichia coli [TaxId: 562] [101137] (1)
  6. Toluene, o-xylene monooxygenase oxygenase subunit TouA [109788]
    contains the TouB(TmoB)-binding YHS (sub)domain (Pfam 04945) in the C-terminal part (401-450)
    1. Pseudomonas stutzeri [TaxId: 316] [109789] (5)
      SQ O87798
  7. Toluene, o-xylene monooxygenase oxygenase subunit TouE [109790]
    1. Pseudomonas stutzeri [TaxId: 316] [109791] (6)
      SQ O87802
  8. Possible acyl-[acyl-carrier protein] desaturase [140442]
    1. Mycobacterium tuberculosis [TaxId: 1773] [140443] (1)
      SQ O53442 8-274
3. Manganese catalase (T-catalase) [100951] (2)
  1. Manganese catalase (T-catalase) [47263]
    1. Lactobacillus plantarum [TaxId: 1590] [74707] (3)
    2. Thermus thermophilus [TaxId: 274] [140444] (2)
      SQ Q5SM21 1-299
4. YciF-like [140445] (2)
  Pfam 05974; DUF892
  1. Hypothetical ptotein RPA3308 [140446]
    putative structural protein
    1. Rhodopseudomonas palustris [TaxId: 1076] [140447] (2)
      SQ Q6N4M9 1-160
  2. Hypothetical protein YciF [140448]
    1. Escherichia coli [TaxId: 562] [140449] (2)
      SQ P21362 3-161
5. half-ferritin [140450] (1)
  comprise of alpha-hairpin subunits forming the ferritin-like four-helical bundle; assembles further in a homodecamer
  1. Hypothetical protein NE0167 [140451]
    1. Nitrosomonas europaea [TaxId: 915] [140452] (10)
      SQ Q82XT5 4-94
6. PMT1231-like [158402] (1)
  PfamB 016165
  1. Hypothetical protein PMT1231 [158403]
    1. Prochlorococcus marinus [TaxId: 1219] [158404] (1)
      SQ Q7V6D4 20-241
7. MiaE-like [158405] (1)
  Pfam 06175; tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)
  1. Putative tRNA-(Ms(2)io(6)a)-hydroxylase PP2188 [158406]
    1. Pseudomonas putida [TaxId: 303] [158407] (2)
      SQ Q88KV1 3-201
8. AMB4284-like [158408] (1)
  possible rubrerythrin
  1. Uncharacterized protein AMB4284 homologue [158409]
    1. Magnetospirillum magnetotacticum ms-1 [TaxId: 272627] [158410] (1)
      SQ Q2VZ87 3-154
9. Rv2844-like [158411] (1)
  PfamB 061364
  1. Hypothetical protein Rv2844 [158412]
    1. Mycobacterium tuberculosis [TaxId: 1773] [158413] (1)
      SQ O05815 17-158
Cobalamin adenosyltransferase-like [89028] (2)
crossover loop goes across a different side of the 4-helical bundle; no internal metal-binding site
uperfamily
1. Cobalamin adenosyltransferase [89032] (2)
  1. Putative ATP-binding cobalamin adenosyltransferase YvqK [101138]
    1. Bacillus subtilis [TaxId: 1423] [101139] (1)
  2. Hypothetical protein Ta0546 [89033]
    1. Archaeon Thermoplasma acidophilum [TaxId: 2303] [89034] (1)
2. Hypothetical protein Ta1238 [89029] (1)
  1. Hypothetical protein Ta1238 [89030]
    1. Archaeon Thermoplasma acidophilum [TaxId: 2303] [89031] (1)
EsxAB dimer-like [140453] (1)
(hetero)dimer of alpha-hairpin subunits similar to that of the half-ferritin family; no bound metals
uperfamily
1. ESAT-6 like [140454] (2)
  Pfam 06013; the conserwed WxG motif makes the turn at the alpha-hairpin tip
  1. ESAT-6 like protein EsxB [140455]
    1. Mycobacterium tuberculosis [TaxId: 1773] [140456] (1)
      SQ P0A566 1-99
  2. ESAT-6, EsxA [140457]
    6 kDa early secretory antigenic target
    1. Mycobacterium tuberculosis [TaxId: 1773] [140458] (1)
      SQ P0A564 1-94
PE/PPE dimer-like [140459] (2)
(hetero)dimer of alpha-hairpin subunits similar to that of the half-ferritin family; no bound metals inside the bundle
uperfamily
1. PE [140460] (1)
  Pfam 00934; pairs with with the N-terminal hairpin of PPE
  1. PE25 [140461]
    1. Mycobacterium tuberculosis [TaxId: 1773] [140462] (2)
      SQ Q7D756 8-84
2. PPE [140463] (1)
  Pfam 00823; contains extra C-terminal alpha-hairpin, unlike the PE family subunit
  1. PPE41 [140464]
    1. Mycobacterium tuberculosis [TaxId: 1773] [140465] (2)
      SQ Q79FE1 2-174
HP0062-like [158414] (1)
(homo)dimer of alpha-hairpin subunits similar to that of the half-ferritin family; no bound metals
1. HP0062-like [158415] (1)
  Pfam 09647
  1. Hypothetical protein HP0062 [158416]
    1. Helicobacter pylori [TaxId: 210] [158417] (1)
      SQ O24902 4-80
SO2669-like [158418] (1)
(homo)dimer of alpha-hairpin subunits similar to that of the half-ferritin family; no bound metals
1. SO2669-like [158419] (1)
  1. Hypothetical protein SO2669 [158420]
    1. Shewanella oneidensis [TaxId: 70863] [158421] (8)
      SQ Q8EDS4 1-64