Structural Classification of Proteins

Superfamily: Periplasmic binding protein-like I

: Similar in architecture to the superfamily II but partly differs in topology
uperfamily

Lineage:

Root: scop
Class: Alpha and beta proteins (a/b) [51349]
Mainly parallel beta sheets (beta-alpha-beta units)
Fold: Periplasmic binding protein-like I [53821]
consists of two similar intertwined domain with 3 layers (a/b/a) each: duplication
parallel beta-sheet of 6 strands, order 213456
Superfamily: Periplasmic binding protein-like I [53822]
Similar in architecture to the superfamily II but partly differs in topology
uperfamily

Families:

L-arabinose binding protein-like [53823] (18)
1. D-ribose-binding protein [53824]
  1. Escherichia coli, strain k-12 [TaxId: 562] [53825] (6)
    1. 2dri
      complexed with rip
      1. chain a [35637]
    2. 1drk
      complexed with rip; mutant
      1. chain a [35638]
    3. 1dbp
      complexed with rip; mutant
      1. chain a [35639]
    4. 1ba2
      mutant
      1. chain a [35640]
      2. chain b [35641]
    5. 1drj
      complexed with rip; mutant
      1. chain a [35642]
    6. 1urp
      1. chain a [35643]
      2. chain b [35644]
      3. chain c [35645]
      4. chain d [35646]
2. L-arabinose-binding protein [53826]
  1. Escherichia coli [TaxId: 562] [53827] (9)
    1. 8abp
      complexed with gla, glb; mutant
      1. chain a [35647]
    2. 1abe
      complexed with ara, arb
      1. chain a [35648]
    3. 6abp
      complexed with ara, arb; mutant
      1. chain a [35650]
    4. 7abp
      complexed with fca, fcb; mutant
      1. chain a [35649]
    5. 5abp
      complexed with gla, glb
      1. chain a [35651]
    6. 1abf
      complexed with fca, fcb
      1. chain a [35652]
    7. 1bap
      complexed with ara, arb; mutant
      1. chain a [35654]
    8. 1apb
      complexed with fca, fcb; mutant
      1. chain a [35653]
    9. 9abp
      complexed with gla, glb; mutant
      1. chain a [35655]
3. D-allose-binding protein [53828]
  1. Escherichia coli [TaxId: 562] [53829] (3)
    1. 1gud
      complexed with zn
      1. chain a [83326]
      2. chain b [83327]
    2. 1rpj
      complexed with all, so4, zn
      1. chain a [35656]
    3. 1gub
      complexed with ni
      1. chain a [83325]
4. Galactose/glucose-binding protein [53830]
  1. Escherichia coli [TaxId: 562] [53831] (6)
    1. 2fvy
      automatically matched to d1glg__
      complexed with act, ca, co2, glc, gol
      1. region a:2-306 [134227]
    2. 2hph
      automatically matched to d1glg__
      complexed with ca, glc
      1. region a:2-305 [136652]
    3. 2fw0
      automatically matched to d1glg__
      complexed with ca, cit, mla, na
      1. region a:2-306 [134228]
    4. 2qw1
      automatically matched to d1glga_
      complexed with 3mg, ca, na
      1. region a:2-306 [151396]
    5. 2gbp
      complexed with ca, glc
      1. chain a [35657]
    6. 1glg
      complexed with ca, gal
      1. chain a [35658]
  2. Salmonella typhimurium, strain lt2 [TaxId: 90371] [53832] (3)
    1. 1gca
      complexed with ca, gal
      1. chain a [35659]
    2. 1gcg
      complexed with ca
      1. chain a [35660]
    3. 3gbp
      complexed with ca, glc
      1. chain a [35661]
5. Amide receptor/negative regulator of the amidase operon (AmiC) [53833]
  1. Pseudomonas aeruginosa [TaxId: 287] [53834] (3)
    1. 1qo0
      1. chain a [35663]
      2. chain b [35664]
    2. 1pea
      complexed with acm
      1. chain a [35662]
    3. 1qnl
      1. chain a [35665]
6. Quorum-sensing signal (autoinducer-2) binding protein LuxP [69622]
  1. Vibrio harveyi [TaxId: 669] [69623] (4)
    1. 1jx6
      complexed with ai2, ca
      1. chain a [67406]
    2. 2hj9
      automatically matched to d1jx6a_
      complexed with ai2
      1. region a:27-364 [136538]
    3. 2hj9
      automatically matched to d1jx6a_
      complexed with ai2
      1. region b:27-364 [136539]
    4. 1zhh
      automatically matched to d1jx6a_
      complexed with nhe
      1. region a:27-364 [125095]
7. Purine repressor (PurR), C-terminal domain [53835]
  1. Escherichia coli [TaxId: 562] [53836] (24)
    1. 1dbq
      complexed with mg
      1. chain a [35666]
      2. chain b [35667]
    2. 1jhz
      complexed with mg; mutant
      1. chain a [66731]
      2. chain b [66732]
    3. 1qpz
      protein/DNA complex; complexed with hpa
      1. region a:59-340 [35673]
    4. 1jft
      complexed with hpa, po4; mutant
      1. region a:59-341 [66653]
    5. 2pub
      protein/DNA complex; complexed with ad2; mutant
      1. region a:59-340 [35679]
    6. 2puc
      protein/DNA complex; complexed with gun; mutant
      1. region a:59-340 [35684]
    7. 1qqb
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35674]
    8. 1vpw
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35680]
    9. 1bdh
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35668]
    10. 2pud
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35678]
    11. 1zay
      1. region a:59-340 [35681]
    12. 2pug
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35683]
    13. 2pue
      protein/DNA complex; complexed with ad2; mutant
      1. region a:59-340 [35682]
    14. 1wet
      protein/DNA complex; complexed with gun
      1. region a:59-340 [35670]
    15. 1jh9
      complexed with hpa, po4; mutant
      1. region a:59-340 [66711]
    16. 1jfs
      complexed with hpa; mutant
      1. region a:59-340 [66651]
    17. 1bdi
      protein/DNA complex; complexed with hpa
      1. region a:59-340 [35669]
    18. 1pnr
      protein/DNA complex; complexed with hpa
      1. region a:59-340 [35671]
    19. 1qqa
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35675]
    20. 2pua
      protein/DNA complex; complexed with 6mp; mutant
      1. region a:59-340 [35685]
    21. 1qp4
      protein/DNA complex; complexed with hpa
      1. region a:59-340 [35672]
    22. 1qp7
      protein/DNA complex; complexed with hpa; mutant
      1. region a:59-340 [35676]
    23. 1qp0
      protein/DNA complex; complexed with hpa
      1. region a:59-340 [35677]
    24. 2puf
      protein/DNA complex; complexed with gun; mutant
      1. region a:59-340 [35686]
8. Lac-repressor (lacR) core (C-terminal domain) [53837]
  1. Escherichia coli [TaxId: 562] [53838] (16)
    1. 1jye
      complexed with gol; mutant
      1. chain a [67455]
    2. 2p9h
      automatically matched to d1jyea_
      complexed with ipt
      1. region a:62-330 [139580]
    3. 2p9h
      automatically matched to d1jyea_
      complexed with ipt
      1. region b:62-330 [139581]
    4. 1efa
      protein/DNA complex; complexed with npf; mutant
      1. region a:61-329 [35691]
      2. region b:61-331 [35692]
      3. region c:61-331 [35693]
    5. 1tlf
      complexed with emc, ipt
      1. chain a [35687]
      2. chain b [35688]
      3. chain c [35689]
      4. chain d [35690]
    6. 1jyf
      complexed with gol
      1. chain a [67456]
    7. 1lbi
      1. chain a [35694]
      2. chain b [35695]
      3. chain c [35696]
      4. chain d [35697]
    8. 1jwl
      complexed with npf; mutant
      1. region a:61-330 [67390]
      2. region b:61-330 [67392]
    9. 1jwl
      complexed with npf; mutant
      1. chain c [67393]
    10. 1lbh
      complexed with ipt
      1. chain a [35698]
      2. chain b [35699]
      3. chain c [35700]
      4. chain d [35701]
    11. 2pe5
      automatically matched to d1jyea_
      complexed with 145; mutant
      1. region a:62-329 [149393]
    12. 2pe5
      automatically matched to d1jyea_
      complexed with 145; mutant
      1. region b:62-329 [149395]
    13. 2pe5
      automatically matched to d1jyea_
      complexed with 145; mutant
      1. region c:62-329 [149397]
    14. 2paf
      automatically matched to d1jyea_
      complexed with npf
      1. region a:62-330 [139641]
    15. 2paf
      automatically matched to d1jyea_
      complexed with npf
      1. region b:62-330 [139642]
    16. 1lbg
      protein/DNA complex
      1. region a:61-357 [35702]
      2. region b:61-357 [35703]
      3. region c:61-357 [35704]
      4. region d:61-357 [35705]
9. Trehalose repressor, C-terminal domain [53839]
  1. Escherichia coli [TaxId: 562] [53840] (1)
    1. 1byk
      complexed with t6p
      1. chain a [35706]
      2. chain b [35707]
10. Leucine-,isoleucine-,valine-binding (LIV) protein [53841]
  1. Escherichia coli [TaxId: 562] [53842] (1)
    1. 2liv
      1. chain a [35708]
11. Leucine-binding protein [53843]
  1. Escherichia coli [TaxId: 562] [53844] (4)
    1. 1usg
      1. chain a [99864]
    2. 1usi
      complexed with phe
      1. chain a [99865]
      2. chain c [99866]
    3. 1usk
      complexed with leu
      1. chain a [99867]
      2. chain b [99868]
      3. chain c [99869]
      4. chain d [99870]
    4. 2lbp
      1. chain a [35709]
12. Hormone binding domain of the atrial natriuretic peptide receptor [53845]
  1. Rat (Rattus norvegicus) [TaxId: 10116] [53846] (2)
    SQ P18910 29-454
    1. 1dp4
      complexed with cl, nag, so4
      1. chain a [35710]
      2. chain c [35711]
    2. 1t34
      complexed with cl, nag
      1. chain a [106299]
      2. chain b [106300]
  2. Human (Homo sapiens) [TaxId: 9606] [64190] (2)
    1. 1jdp
      complexed with a C-type natriuretic peptide, chain H
      complexed with cl, nag
      1. chain a [62906]
      2. chain b [62907]
    2. 1jdn
      complexed with cl, fuc, man, nag
      1. chain a [62905]
13. Metabotropic glutamate receptor subtype 1 [53847]
  1. Rat (Rattus norvegicus) [TaxId: 10116] [53848] (5)
    1. 1ewk
      complexed with epe, glu, mg, nag
      1. chain a [35712]
      2. chain b [35713]
    2. 1isr
      complexed with gd, glu
      1. chain a [71403]
    3. 1iss
      complexed with mcg
      1. chain a [71404]
      2. chain b [71405]
    4. 1ewt
      complexed with nag, so4
      1. chain a [35714]
      2. chain b [35715]
    5. 1ewv
      1. chain a [35716]
      2. chain b [35717]
14. AI-2 receptor LsrB [110745]
  1. Salmonella typhi [TaxId: 90370] [110746] (2)
    SQ Q8Z2X8 27-340
    1. 1tjy
      complexed with pav
      1. chain a [107062]
    2. 1tm2
      1. chain a [107149]
15. Glucose-resistance amylase regulator CcpA, C-terminal domain [117740]
  1. Bacillus megaterium [TaxId: 1404] [117741] (11)
    SQ P46828 58-322 ! SQ P46828
    1. 2nzu
      automatically matched to d1sxga_
      complexed with bg6, so4
      1. region g:58-332 [138854]
    2. 1sxg
      complexed with 171; mutant
      1. chain a [112141]
      2. chain b [112142]
      3. chain d [112143]
      4. chain f [112144]
      5. chain i [112145]
      6. chain p [112146]
    3. 1sxh
      mutant
      1. chain a [112147]
      2. chain d [112148]
    4. 2hsg
      automatically matched to d1sxga_
      1. region a:60-332 [136723]
    5. 1sxi
      complexed with mg; mutant
      1. chain a [112149]
      2. chain b [112150]
      3. chain d [112151]
      4. chain g [112152]
      5. chain i [112153]
      6. chain k [112154]
      7. chain l [112155]
      8. chain m [112156]
      9. chain n [112157]
      10. chain r [112158]
      11. chain t [112159]
      12. chain w [112160]
    6. 1rzr
      complexed with mg, so4
      1. region a:61-332 [111990]
      2. region c:61-332 [111992]
      3. region d:61-332 [111994]
      4. region g:61-332 [111996]
    7. 1zvv
      complexed with iod; mutant
      1. region a:60-332 [125728]
    8. 1zvv
      automatically matched to 1ZVV A:60-332
      complexed with iod; mutant
      1. region b:60-332 [125730]
    9. 1zvv
      automatically matched to 1ZVV A:60-332
      complexed with iod; mutant
      1. region g:60-332 [125732]
    10. 2nzv
      automatically matched to d1sxga_
      complexed with fbp, so4
      1. region g:58-332 [138856]
    11. 2oen
      automatically matched to d1sxga_
      1. region g:58-332 [139039]
16. YraM C-terminal domain [159804]
  1. Haemophilus influenzae [TaxId: 727] [159805] (1)
    SQ P45299 257-573
    HI1655
    1. 3ckm
      complexed with bme, so4
      1. region a:257-573 [156739]