Structural Classification of Proteins

Superfamily: Dimeric alpha+beta barrel

: dimerizes through the beta-sheet; forms beta-sheet barrel, closed (n=8, S=12); dimers may assemble in higher oligomers
uperfamily

Lineage:

Root: scop
Class: Alpha and beta proteins (a+b) [53931]
Mainly antiparallel beta sheets (segregated alpha and beta regions)
Fold: Ferredoxin-like [54861]
alpha+beta sandwich with antiparallel beta-sheet; (beta-alpha-beta)x2
Superfamily: Dimeric alpha+beta barrel [54909]
dimerizes through the beta-sheet; forms beta-sheet barrel, closed (n=8, S=12); dimers may assemble in higher oligomers
uperfamily

Families:

Actinorhodin biosynthesis monooxygenase ActVa-Orf6 [82666] (1)
1. Actinorhodin biosynthesis monooxygenase ActVa-Orf6 [82667]
  1. Streptomyces coelicolor [TaxId: 1902] [82668] (5)
    1. 1lq9
      complexed with pg4
      1. chain a [78129]
      2. chain b [78130]
    2. 1n5q
      complexed with p6g, tnc
      1. chain a [80035]
      2. chain b [80036]
    3. 1n5s
      complexed with 1pg, adl
      1. chain a [80039]
      2. chain b [80040]
    4. 1n5t
      complexed with oal
      1. chain a [80041]
      2. chain b [80042]
    5. 1n5v
      complexed with nom
      1. chain a [80043]
      2. chain b [80044]
Plant stress-induced protein [89927] (3)
1. Hypothetical protein AT3G17210.1 [89928]
  1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [89929] (3)
    1. 1q4r
      structural genomics
      complexed with mg
      1. chain a [95823]
    2. 2q3p
      automatically matched to d1q53a_
      complexed with mg
      1. region a:10-112 [139798]
    3. 1q53
      structural genomics
      1. chain a [95858]
      2. chain b [95859]
2. Hypothetical protein AT5G22580 [102957]
  1. Thale cress (Arabidopsis thaliana) [TaxId: 3702] [102958] (1)
    1. 1rjj
      1. chain a [97569]
      2. chain b [97570]
3. Boiling stable protein 1 [110953]
  1. European aspen (Populus tremula) [TaxId: 113636] [110954] (2)
    SQ Q9AR79
    1. 1tr0
      complexed with gol
      1. chain a [107261]
      2. chain b [107262]
      3. chain c [107263]
      4. chain d [107264]
      5. chain e [107265]
      6. chain f [107266]
      7. chain g [107267]
      8. chain h [107268]
      9. chain i [107269]
      10. chain j [107270]
      11. chain k [107271]
      12. chain l [107272]
      13. chain m [107273]
      14. chain n [107274]
      15. chain o [107275]
      16. chain p [107276]
      17. chain r [107277]
      18. chain s [107278]
      19. chain t [107279]
      20. chain u [107280]
      21. chain v [107281]
      22. chain w [107282]
      23. chain x [107283]
      24. chain y [107284]
    2. 1si9
      complexed with gol
      1. chain a [105571]
      2. chain b [105572]
      3. chain c [105573]
PG130-like [102959] (5)
subfamily of Pfam 03992
1. Hypothetical protein TT1380 [102960]
  1. Thermus thermophilus [TaxId: 274] [102961] (1)
    1. 1iuj
      structural genomics
      complexed with zn
      1. chain a [90701]
      2. chain b [90702]
2. Hypothetical protein PG130 (SAV0165) [110955]
  1. Staphylococcus aureus [TaxId: 1280] [110956] (3)
    SQ Q99X56
    1. 2zdp
      automatically matched to d1sqea_
      complexed with cl, coh
      1. region a:0-108 [154396]
    2. 2zdp
      automatically matched to d1sqea_
      complexed with cl, coh
      1. region b:0-108 [154397]
    3. 1sqe
      Structural genomics target
      1. chain a [105908]
      2. chain b [105909]
3. Hypothetical protein BC2969 [110957]
  1. Bacillus cereus [TaxId: 1396] [110958] (1)
    SQ Q81C15
    1. 1tz0
      Structural genomics target
      complexed with edo, fmt
      1. chain a [107463]
      2. chain b [107464]
      3. chain c [107465]
4. Hypothetical protein IsdG [117934]
  1. Staphylococcus aureus [TaxId: 1280] [117935] (1)
    SQ Q8NX62
    1. 1xbw
      Structural genomics target
      1. chain a [115096]
      2. chain b [115097]
      3. chain c [115098]
      4. chain d [115099]
5. Hypothetical protein YqjZ [160283]
  1. Bacillus subtilis [TaxId: 1423] [160284] (1)
    SQ P54563 3-110
    1. 2go8
      1. region a:3-110 [147144]
Hypothetical protein YjcS [102962] (1)
1. Hypothetical protein YjcS [102963]
  1. Bacillus subtilis [TaxId: 1423] [102964] (1)
    1. 1q8b
      structural genomics; monomeric form?
      1. chain a [96201]
YciI-like [102965] (1)
structural similarity to MLI extends to the active site cavity location
1. Hypothetical protein HI0828 [102966]
  1. Haemophilus influenzae [TaxId: 727] [102967] (1)
    1. 1mwq
      structural genomics
      complexed with 1pe, cac, cl, peg, zn
      1. chain a [91481]
      2. chain b [91482]
Muconalactone isomerase, MLI [54910] (1)
decamer: pentamer of dimers
1. Muconalactone isomerase, MLI [54911]
  1. Pseudomonas putida [TaxId: 303] [54912] (10)
    1. 1mli
      CA-atoms only
      1. chain a [39070]
    2. 1mli
      duplicate of 1MLI
      1. chain b [118555]
    3. 1mli
      duplicate of 1MLI
      1. chain c [118556]
    4. 1mli
      duplicate of 1MLI
      1. chain d [118557]
    5. 1mli
      duplicate of 1MLI
      1. chain e [118558]
    6. 1mli
      duplicate of 1MLI
      1. chain f [118559]
    7. 1mli
      duplicate of 1MLI
      1. chain g [118560]
    8. 1mli
      duplicate of 1MLI
      1. chain h [118561]
    9. 1mli
      duplicate of 1MLI
      1. chain i [118562]
    10. 1mli
      duplicate of 1MLI
      1. chain j [118563]
Lrp/AsnC-like transcriptional regulator C-terminal domain [69733] (4)
octamer: tetramer of dimers
1. LprA [69734]
  1. Archaeon Pyrococcus furiosus [TaxId: 2261] [69735] (1)
    1. 1i1g
      1. region a:62-141 [65983]
      2. region b:62-141 [65985]
2. Putative transcriptional regulator PH1519 [102968]
  archaeal feast/famine regulatory protein
  1. Archaeon Pyrococcus horikoshii [TaxId: 53953] [102969] (3)
    identical sequence to Pyrococcus sp. ot3 protein
    1. 2cyy
      automatically matched to d1ri7a2
      complexed with ca, gln
      1. region a:65-150 [131029]
    2. 2e1c
      automatically matched to d1ri7a2
      1. region a:85-170 [146626]
    3. 1ri7
      1. region a:85-170 [97505]
3. Transcriptional regulator LrpC [143259]
  1. Bacillus subtilis [TaxId: 1423] [143260] (8)
    SQ P96582 64-140
    1. 2cfx
      1. region a:64-140 [130396]
    2. 2cfx
      automatically matched to 2CFX A:64-140
      1. region b:64-140 [130398]
    3. 2cfx
      automatically matched to 2CFX A:64-140
      1. region c:64-140 [130400]
    4. 2cfx
      automatically matched to 2CFX A:64-140
      1. region d:64-140 [130402]
    5. 2cfx
      automatically matched to 2CFX A:64-140
      1. region e:64-140 [130404]
    6. 2cfx
      automatically matched to 2CFX A:64-140
      1. region f:64-140 [130406]
    7. 2cfx
      automatically matched to 2CFX A:64-140
      1. region g:64-140 [130408]
    8. 2cfx
      automatically matched to 2CFX A:64-140
      1. region h:64-140 [130410]
4. Regulatory protein AsnC [143261]
  1. Escherichia coli [TaxId: 562] [143262] (2)
    SQ P0ACI6 67-152
    1. 2cg4
      complexed with asn, mg; mutant
      1. region a:67-152 [130418]
    2. 2cg4
      automatically matched to 2CG4 A:67-152
      complexed with asn, mg; mutant
      1. region b:67-152 [130420]
Polyketide synthesis cyclase [110959] (1)
Pfam 04673
1. Tetracenomycin polyketide synthesis protein TcmI [110960]
  1. Streptomyces glaucescens [TaxId: 1907] [110961] (1)
    SQ P39890
    1. 1tuw
      complexed with so4
      1. chain a [107346]
DGPF domain (Pfam 04946) [110962] (1)
there is the putative active site cavity in the equivalent location location to the MLI and YciI active sites
1. Hypothetical protein PA1349 [110963]
  1. Pseudomonas aeruginosa [TaxId: 287] [110964] (1)
    SQ Q9I3Z5
    1. 1s7i
      Structural genomics target
      1. chain a [105353]
Chlorite dismutase-like [110965] (2)
Pfam 06778; duplication: consists of two similar domains; forms a pentamer similar to the MLI decamer
1. YwfI homologue [110966]
  1. Bacillus stearothermophilus [TaxId: 1422] [110967] (1)
    SQ Q5KUD5 # 98% sequence identity; Geobacillus kaustophilus TaxID:1462
    1. 1t0t
      complexed with mo6, p33
      1. chain v [106229]
      2. chain w [106230]
      3. chain x [106231]
      4. chain y [106232]
      5. chain z [106233]
2. Polyketide synthase CurD homologue TTHA1714/TTC1352 [110968]
  1. Thermus thermophilus [TaxId: 274] [110969] (1)
    SQ Q5SHL6
    1. 1vdh
      Structural genomics target
      mutant
      1. chain a [108523]
      2. chain b [108524]
      3. chain c [108525]
      4. chain d [108526]
      5. chain e [108527]
PA3566-like [110970] (5)
subfamily of Pfam 03992
1. Hypothetical protein PA3566 [110971]
  1. Pseudomonas aeruginosa [TaxId: 287] [110972] (1)
    SQ Q9HY51
    1. 1x7v
      Structural genomics target
      complexed with so4
      1. chain a [109501]
      2. chain b [109502]
      3. chain c [109503]
2. Hypothetical protein YgiN [117936]
  1. Escherichia coli [TaxId: 562] [117937] (2)
    SQ P0ADU2 P40718
    1. 1tuv
      structural genomics target
      complexed with vk3
      1. chain a [112665]
    2. 1r6y
      Structural genomics target
      1. chain a [111711]
3. Hypothetical protein Rv0793 [117938]
  1. Mycobacterium tuberculosis [TaxId: 1773] [117939] (1)
    SQ O86332
    1. 1y0h
      Structural genomics target
      complexed with act
      1. chain a [116303]
      2. chain b [116304]
4. Hypothetical protein NE2512 [160285]
  1. Nitrosomonas europaea [TaxId: 915] [160286] (4)
    SQ Q82S47 1-100
    1. 2pd1
      complexed with act
      1. region a:1-100 [149387]
    2. 2pd1
      automatically matched to 2PD1 A:1-100
      complexed with act
      1. region b:1-100 [149388]
    3. 2pd1
      automatically matched to 2PD1 A:1-100
      complexed with act
      1. region c:1-100 [149389]
    4. 2pd1
      automatically matched to 2PD1 A:1-100
      complexed with act
      1. region d:1-100 [149390]
5. Hypothetical protein NE0621 [160287]
  1. Nitrosomonas europaea [TaxId: 915] [160288] (8)
    SQ Q82WP3 1-98
    1. 2omo
      1. region a:1-98 [148871]
    2. 2omo
      automatically matched to 2OMO A:1-98
      1. region b:1-98 [148872]
    3. 2omo
      automatically matched to 2OMO A:1-98
      1. region c:1-98 [148873]
    4. 2omo
      automatically matched to 2OMO A:1-98
      1. region d:1-97 [148874]
    5. 2omo
      automatically matched to 2OMO A:1-98
      1. region e:1-95 [148875]
    6. 2omo
      automatically matched to 2OMO A:1-98
      1. region f:1-94 [148876]
    7. 2omo
      automatically matched to 2OMO A:1-98
      1. region g:1-97 [148877]
    8. 2omo
      automatically matched to 2OMO A:1-98
      1. region h:1-97 [148878]
Hypothetical protein YdhR [117940] (1)
1. Hypothetical protein YdhR [117941]
  1. Escherichia coli [TaxId: 562] [117942] (5)
    SQ P77225
    1. 2hiq
      automatically matched to d1wd6a_
      1. region a:9-104 [136529]
    2. 2hiq
      automatically matched to d1wd6a_
      1. region b:9-104 [136530]
    3. 1wd6
      Structural genomics target
      1. chain a [114525]
    4. 2asy
      1. region a:1-101 [127278]
    5. 2asy
      automatically matched to 2ASY A:1-101
      1. region b:1-101 [127279]
NIPSNAP [117943] (2)
Pfam 07978
1. Hypothetical protein Atu4242 [117944]
  1. Agrobacterium tumefaciens [TaxId: 358] [117945] (9)
    SQ Q8U857
    1. 1vqs
      structural genomics target
      complexed with mpd, so4
      1. chain a [114019]
      2. chain b [114020]
      3. chain c [114021]
      4. chain d [114022]
      5. chain e [114023]
    2. 2ap6
      1. region a:1-104 [127111]
    3. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region b:1-104 [127112]
    4. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region c:1-104 [127113]
    5. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region d:1-104 [127114]
    6. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region e:1-104 [127115]
    7. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region f:1-104 [127116]
    8. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region g:1-104 [127117]
    9. 2ap6
      automatically matched to 2AP6 A:1-104
      1. region h:1-104 [127118]
2. Hypothetical protein Atu5224 [143263]
  1. Agrobacterium tumefaciens [TaxId: 358] [143264] (8)
    SQ Q8UK99 1-104
    1. 1vqy
      complexed with po4
      1. region a:1-104 [120418]
    2. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region b:1-104 [120419]
    3. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region c:1-104 [120420]
    4. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region d:1-104 [120421]
    5. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region e:1-104 [120422]
    6. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region f:1-104 [120423]
    7. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region g:1-104 [120424]
    8. 1vqy
      automatically matched to 1VQY A:1-104
      complexed with po4
      1. region h:1-104 [120425]
Dyp-type peroxidase-like [143265] (3)
Pfam 04261
1. Hypothetical protein BT1219 [143266]
  1. Bacteroides thetaiotaomicron [TaxId: 818] [143267] (1)
    SQ Q8A8E8 8-316
    1. 2gvk
      complexed with acy, cl, edo, na, unl
      1. region a:8-316 [135782]
2. Decolorizing peroxidase DyP [143268]
  1. Geotrichum candidum [TaxId: 27317] [143269] (2)
    SQ Q8WZK8 60-498
    species assignment from the UniProt sequence (Id 100%); 2d3q species is Thanatephorus cucumeris
    1. 2d3q
      complexed with hem
      1. region a:4-442 [131214]
    2. 2d3q
      automatically matched to 2D3Q A:4-442
      complexed with hem
      1. region b:4-442 [131215]
3. Melanin biosynthesis protein TyrA [143270]
  1. Shewanella oneidensis [TaxId: 70863] [143271] (2)
    SQ Q8EIU4 5-311
    1. 2iiz
      automatically matched to 2HAG A:5-311
      complexed with edo, hem, ipa, na
      1. region a:5-310 [137444]
    2. 2hag
      1. region a:5-311 [136287]
EthD-like [143272] (1)
Pfam 07110
1. Hypothetical protein BH0200 [143273]
  1. Bacillus halodurans [TaxId: 86665] [143274] (2)
    SQ Q9KGB0 4-106
    1. 2ftr
      complexed with cl, gol, unl
      1. region a:4-106 [134077]
    2. 2ftr
      automatically matched to 2FTR A:4-106
      complexed with cl, gol, unl
      1. region b:6-105 [134078]
Atu0297-like [143275] (1)
Pfam 07045; DUF1330
1. Hypothetical protein Atu0297 [143276]
  1. Agrobacterium tumefaciens [TaxId: 358] [143277] (2)
    SQ Q8UIJ7 1-95
    1. 2fiu
      1. region a:1-95 [133537]
    2. 2fiu
      automatically matched to 2FIU A:1-95
      1. region b:1-95 [133538]
SOR-like [143278] (1)
Pfam 07682; duplication: consists of two similar domains
1. Sulfur oxygenase reductase SOR [143279]
  1. Acidianus ambivalens [TaxId: 2283] [143280] (1)
    SQ P29082 2-308
    1. 2cb2
      complexed with fe
      1. region a:2-308 [130174]
YbaA-like [160289] (1)
Pfam 07237; DUF1428
1. Hypothetical protein YbaA [160290]
  1. Shigella flexneri [TaxId: 623] [160291] (2)
    SQ P0AAQ9 1-117
    1. 2okq
      complexed with na
      1. region a:1-117 [148807]
    2. 2okq
      automatically matched to 2OKQ A:1-117
      complexed with na
      1. region b:1-117 [148808]
MmlI-like [160292] (1)
Pfam 09448; Methylmuconolactone methyl-isomerase
1. Hypothetical protein Reut_A1503 [160293]
  1. Ralstonia eutropha [TaxId: 106590] [160294] (2)
    SQ Q471R3 1-108
    1. 2ifx
      complexed with cl, gol
      1. region a:1-108 [147653]
    2. 2ifx
      automatically matched to 2IFX A:1-108
      complexed with cl, gol
      1. region b:1-107 [147654]
Marine metagenome family DABB2 [160295] (1)
1. Hypothetical protein GOS_3280838 [160296]
  1. environmental samples [160297] (2)
    1. 2od4
      complexed with cl, edo
      1. region a:1-100 [148734]
    2. 2od4
      automatically matched to 2OD4 A:1-100
      complexed with cl, edo
      1. region b:1-100 [148735]
YiiL-like [160298] (1)
Pfam 05336; DUF718
1. L-rhamnose mutarotase YiiL [160299]
  1. Escherichia coli [TaxId: 562] [160300] (4)
    SQ P32156 1-104
    1. 1x8d
      complexed with rns
      1. region a:1-104 [145855]
    2. 1x8d
      automatically matched to 1X8D A:1-104
      complexed with rns
      1. region b:1-104 [145856]
    3. 1x8d
      automatically matched to 1X8D A:1-104
      complexed with rns
      1. region c:1-104 [145857]
    4. 1x8d
      automatically matched to 1X8D A:1-104
      complexed with rns
      1. region d:1-104 [145858]
Marine metagenome family DABB1 [160301] (2)
1. Hypothetical protein GOS_7213774 [160302]
  1. environmental samples [160303] (6)
    marine metagenome
    1. 2op5
      complexed with edo
      1. region a:4-115 [148954]
    2. 2op5
      automatically matched to 2OP5 A:4-115
      complexed with edo
      1. region b:8-115 [148955]
    3. 2op5
      automatically matched to 2OP5 A:4-115
      complexed with edo
      1. region c:4-115 [148956]
    4. 2op5
      automatically matched to 2OP5 A:4-115
      complexed with edo
      1. region d:8-114 [148957]
    5. 2op5
      automatically matched to 2OP5 A:4-115
      complexed with edo
      1. region e:5-115 [148958]
    6. 2op5
      automatically matched to 2OP5 A:4-115
      complexed with edo
      1. region f:7-114 [148959]
2. Hypothetical protein GOS_2359375 [160304]
  1. environmental samples [160305] (4)
    marine metagenome
    1. 2od6
      complexed with edo, oha
      1. region a:1-109 [148737]
    2. 2od6
      automatically matched to 2OD6 A:1-109
      complexed with edo, oha
      1. region b:2-109 [148738]
    3. 2od6
      automatically matched to 2OD6 A:1-109
      complexed with edo, oha
      1. region c:3-109 [148739]
    4. 2od6
      automatically matched to 2OD6 A:1-109
      complexed with edo, oha
      1. region d:2-109 [148740]
Marine metagenome family DABB3 [160306] (1)
duplication: consists of two similar domains; forms a pentamer similar to the Chlorite dismutase-like pentamer and the MLI decamer
1. Uncharacterized protein GOS_2596953 [160307]
  1. environmental samples [160308] (5)
    1. 2pgc
      complexed with cl
      1. region a:1-206 [149457]
    2. 2pgc
      automatically matched to 2PGC A:1-206
      complexed with cl
      1. region b:2-206 [149458]
    3. 2pgc
      automatically matched to 2PGC A:1-206
      complexed with cl
      1. region c:4-206 [149459]
    4. 2pgc
      automatically matched to 2PGC A:1-206
      complexed with cl
      1. region d:2-206 [149460]
    5. 2pgc
      automatically matched to 2PGC A:1-206
      complexed with cl
      1. region e:2-206 [149461]