Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP67080
DateThu Jan 5 12:10:23 GMT 2012
Unique Job IDe1688d11acbb5a92

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1w8gA_
Top template information
PDB header:plp-binding protein
Chain: A: PDB Molecule:hypothetical upf0001 protein yggs;
PDBTitle: crystal structure of e. coli k-12 yggs
Confidence and coverage
Confidence:100.0% Coverage: 97%
226 residues ( 97% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MNDIAHNLAQVRDKISAAATRCGRSPEEITLLAVSKTKPASAIAEAIDAGQRQFGENYVQ
Secondary structure 














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Disorder  ???

















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   .........70.........80.........90.........100.........110.........120
Sequence  EGVDKIRHFQELGVTGLEWHFIGPLQSNKSRLVAEHFDWCHTIDRLRIATRLNDQRPAEL
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   .........130.........140.........150.........160.........170.........180
Sequence  PPLNVLIQINISDENSKSGIQLAELDELAAAVAELPRLRLRGLMAIPAPESEYVRQFEVA
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   .........190.........200.........210.........220.........230....
Sequence  RQMAVAFAGLKTRYPHIDTLSLGMSDDMEAAIAAGSTMVRIGTAIFGARDYSKK
Secondary structure 























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Disorder 













































????????
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Confidence Key
High(9)                    Low (0)
?Disordered
Alpha helix
Beta strand

Domain analysis 

Hover over an aligned region to see model and summary info

Please note, only up to the top 20 hits are modelled to reduce computer load

RankAligned region

PDB 1w8g chain A

3D model

Region: 3 - 228
Aligned: 226
Modelled: 226
Confidence: 100.0%
Identity: 100%
PDB header:plp-binding protein
Chain: A: PDB Molecule:hypothetical upf0001 protein yggs;
PDBTitle: crystal structure of e. coli k-12 yggs

Phyre2

PDB 3cpg chain A

3D model

Region: 2 - 226
Aligned: 225
Modelled: 225
Confidence: 100.0%
Identity: 33%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an unknown protein from bifidobacterium2 adolescentis

Phyre2

PDB 3r79 chain B

3D model

Region: 3 - 231
Aligned: 217
Modelled: 229
Confidence: 100.0%
Identity: 38%
PDB header:structure genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharactertized protein from agrobacterium2 tumefaciens

Phyre2

PDB 1ct5 chain A

3D model

Region: 2 - 227
Aligned: 210
Modelled: 219
Confidence: 100.0%
Identity: 36%
Fold: TIM beta/alpha-barrel
Superfamily: PLP-binding barrel
Family: "Hypothetical" protein ybl036c

Phyre2

PDB 1xfc chain B

3D model

Region: 1 - 232
Aligned: 222
Modelled: 232
Confidence: 100.0%
Identity: 15%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: the 1.9 a crystal structure of alanine racemase from mycobacterium2 tuberculosis contains a conserved entryway into the active site

Phyre2

PDB 1bd0 chain A domain 2

3D model

Region: 7 - 233
Aligned: 215
Modelled: 227
Confidence: 100.0%
Identity: 16%
Fold: TIM beta/alpha-barrel
Superfamily: PLP-binding barrel
Family: Alanine racemase-like, N-terminal domain

Phyre2

PDB 1vfs chain A domain 2

3D model

Region: 7 - 233
Aligned: 214
Modelled: 227
Confidence: 100.0%
Identity: 18%
Fold: TIM beta/alpha-barrel
Superfamily: PLP-binding barrel
Family: Alanine racemase-like, N-terminal domain

Phyre2

PDB 3e6e chain C

3D model

Region: 7 - 234
Aligned: 217
Modelled: 228
Confidence: 100.0%
Identity: 16%
PDB header:isomerase
Chain: C: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from e.faecalis2 complex with cycloserine

Phyre2

PDB 3oo2 chain A

3D model

Region: 7 - 230
Aligned: 209
Modelled: 219
Confidence: 100.0%
Identity: 13%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase 1;
PDBTitle: 2.37 angstrom resolution crystal structure of an alanine racemase2 (alr) from staphylococcus aureus subsp. aureus col

Phyre2

PDB 2dy3 chain B

3D model

Region: 7 - 234
Aligned: 210
Modelled: 228
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from corynebacterium glutamicum

Phyre2

PDB 3mub chain B

3D model

Region: 7 - 234
Aligned: 213
Modelled: 228
Confidence: 100.0%
Identity: 18%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: the crystal structure of alanine racemase from streptococcus2 pneumoniae

Phyre2

PDB 1rcq chain A domain 2

3D model

Region: 1 - 233
Aligned: 205
Modelled: 233
Confidence: 100.0%
Identity: 19%
Fold: TIM beta/alpha-barrel
Superfamily: PLP-binding barrel
Family: Alanine racemase-like, N-terminal domain

Phyre2

PDB 1niu chain A

3D model

Region: 7 - 233
Aligned: 213
Modelled: 221
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: alanine racemase with bound inhibitor derived from l-2 cycloserine

Phyre2

PDB 3kw3 chain B

3D model

Region: 7 - 234
Aligned: 211
Modelled: 223
Confidence: 100.0%
Identity: 13%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from bartonella henselae with2 covalently bound pyridoxal phosphate

Phyre2

PDB 1vft chain A

3D model

Region: 7 - 233
Aligned: 216
Modelled: 227
Confidence: 100.0%
Identity: 17%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of l-cycloserine-bound form of alanine2 racemase from d-cycloserine-producing streptomyces3 lavendulae

Phyre2

PDB 3oo2 chain B

3D model

Region: 7 - 230
Aligned: 207
Modelled: 219
Confidence: 100.0%
Identity: 13%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase 1;
PDBTitle: 2.37 angstrom resolution crystal structure of an alanine racemase2 (alr) from staphylococcus aureus subsp. aureus col

Phyre2

PDB 3co8 chain B

3D model

Region: 1 - 234
Aligned: 213
Modelled: 223
Confidence: 100.0%
Identity: 13%
PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from oenococcus oeni

Phyre2

PDB 3hur chain A

3D model

Region: 1 - 233
Aligned: 211
Modelled: 222
Confidence: 100.0%
Identity: 19%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from oenococcus oeni

Phyre2

PDB 2vd9 chain A

3D model

Region: 7 - 234
Aligned: 208
Modelled: 223
Confidence: 100.0%
Identity: 18%
PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: the crystal structure of alanine racemase from bacillus2 anthracis (ba0252) with bound l-ala-p

Phyre2

PDB 2rjg chain C

3D model

Region: 7 - 233
Aligned: 206
Modelled: 227
Confidence: 100.0%
Identity: 11%
PDB header:isomerase
Chain: C: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of biosynthetic alaine racemase from escherichia2 coli

Phyre2
1

c1w8gA_
2

c3cpgA_
3

c3r79B_
4

d1ct5a_
5

c1xfcB_
6

d1bd0a2
7

d1vfsa2
8

c3e6eC_
9

c3oo2A_
10

c2dy3B_
11

c3mubB_
12

d1rcqa2
13

c1niuA_
14

c3kw3B_
15

c1vftA_
16

c3oo2B_
17

c3co8B_
18

c3hurA_
19

c2vd9A_
20

c2rjgC_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1w8gA_



100.0 100 PDB header:plp-binding protein
Chain: A: PDB Molecule:hypothetical upf0001 protein yggs;
PDBTitle: crystal structure of e. coli k-12 yggs
2c3cpgA_



100.0 33 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an unknown protein from bifidobacterium2 adolescentis
3c3r79B_



100.0 38 PDB header:structure genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of an uncharactertized protein from agrobacterium2 tumefaciens
4d1ct5a_



100.0 36 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:"Hypothetical" protein ybl036c
5c1xfcB_



100.0 15 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: the 1.9 a crystal structure of alanine racemase from mycobacterium2 tuberculosis contains a conserved entryway into the active site
6d1bd0a2



100.0 16 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
7d1vfsa2



100.0 18 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
8c3e6eC_



100.0 16 PDB header:isomerase
Chain: C: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from e.faecalis2 complex with cycloserine
9c3oo2A_



100.0 13 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase 1;
PDBTitle: 2.37 angstrom resolution crystal structure of an alanine racemase2 (alr) from staphylococcus aureus subsp. aureus col
10c2dy3B_



100.0 17 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from corynebacterium glutamicum
11c3mubB_



100.0 18 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: the crystal structure of alanine racemase from streptococcus2 pneumoniae
12d1rcqa2



100.0 19 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
13c1niuA_



100.0 17 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: alanine racemase with bound inhibitor derived from l-2 cycloserine
14c3kw3B_



100.0 13 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from bartonella henselae with2 covalently bound pyridoxal phosphate
15c1vftA_



100.0 17 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of l-cycloserine-bound form of alanine2 racemase from d-cycloserine-producing streptomyces3 lavendulae
16c3oo2B_



100.0 13 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase 1;
PDBTitle: 2.37 angstrom resolution crystal structure of an alanine racemase2 (alr) from staphylococcus aureus subsp. aureus col
17c3co8B_



100.0 13 PDB header:isomerase
Chain: B: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from oenococcus oeni
18c3hurA_



100.0 19 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of alanine racemase from oenococcus oeni
19c2vd9A_



100.0 18 PDB header:isomerase
Chain: A: PDB Molecule:alanine racemase;
PDBTitle: the crystal structure of alanine racemase from bacillus2 anthracis (ba0252) with bound l-ala-p
20c2rjgC_



100.0 11 PDB header:isomerase
Chain: C: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of biosynthetic alaine racemase from escherichia2 coli
21c2odoC_



not modelled 100.0 17 PDB header:isomerase
Chain: C: PDB Molecule:alanine racemase;
PDBTitle: crystal structure of pseudomonas fluorescens alanine racemase
22c3anuA_



not modelled 100.0 13 PDB header:lyase
Chain: A: PDB Molecule:d-serine dehydratase;
PDBTitle: crystal structure of d-serine dehydratase from chicken kidney
23c3llxA_



not modelled 100.0 16 PDB header:isomerase
Chain: A: PDB Molecule:predicted amino acid aldolase or racemase;
PDBTitle: crystal structure of an ala racemase-like protein (il1761) from2 idiomarina loihiensis at 1.50 a resolution
24c3gwqB_



not modelled 100.0 12 PDB header:lyase
Chain: B: PDB Molecule:d-serine deaminase;
PDBTitle: crystal structure of a putative d-serine deaminase (bxe_a4060) from2 burkholderia xenovorans lb400 at 2.00 a resolution
25c2qghA_



not modelled 100.0 9 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of diaminopimelate decarboxylase from helicobacter2 pylori complexed with l-lysine
26c2j66A_



not modelled 100.0 12 PDB header:lyase
Chain: A: PDB Molecule:btrk;
PDBTitle: structural characterisation of btrk decarboxylase from2 butirosin biosynthesis
27c2p3eA_



not modelled 100.0 11 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of aq1208 from aquifex aeolicus
28c3n2bD_



not modelled 100.0 16 PDB header:lyase
Chain: D: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: 1.8 angstrom resolution crystal structure of diaminopimelate2 decarboxylase (lysa) from vibrio cholerae.
29c1tufA_



not modelled 99.9 13 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of diaminopimelate decarboxylase from m.2 jannaschi
30c1njjC_



not modelled 99.9 11 PDB header:lyase
Chain: C: PDB Molecule:ornithine decarboxylase;
PDBTitle: crystal structure determination of t. brucei ornithine2 decarboxylase bound to d-ornithine and to g418
31d1twia2



not modelled 99.9 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
32c2nvaH_



not modelled 99.9 12 PDB header:lyase
Chain: H: PDB Molecule:arginine decarboxylase, a207r protein;
PDBTitle: the x-ray crystal structure of the paramecium bursaria2 chlorella virus arginine decarboxylase bound to agmatine
33d1hkva2



not modelled 99.9 15 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
34d7odca2



not modelled 99.9 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
35d1f3ta2



not modelled 99.9 12 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
36c2pljA_



not modelled 99.9 15 PDB header:lyase
Chain: A: PDB Molecule:lysine/ornithine decarboxylase;
PDBTitle: crystal structure of lysine/ornithine decarboxylase complexed with2 putrescine from vibrio vulnificus
37c2o0tB_



not modelled 99.8 15 PDB header:lyase
Chain: B: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: the three dimensional structure of diaminopimelate decarboxylase from2 mycobacterium tuberculosis reveals a tetrameric enzyme organisation
38c1knwA_



not modelled 99.8 13 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure of diaminopimelate decarboxylase
39d1d7ka2



not modelled 99.8 11 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
40c2yxxA_



not modelled 99.8 13 PDB header:lyase
Chain: A: PDB Molecule:diaminopimelate decarboxylase;
PDBTitle: crystal structure analysis of diaminopimelate decarboxylate (lysa)
41c2on3A_



not modelled 99.8 13 PDB header:lyase
Chain: A: PDB Molecule:ornithine decarboxylase;
PDBTitle: a structural insight into the inhibition of human and2 leishmania donovani ornithine decarboxylases by 3-aminooxy-3 1-aminopropane
42c3nzqB_



not modelled 99.7 15 PDB header:lyase
Chain: B: PDB Molecule:biosynthetic arginine decarboxylase;
PDBTitle: crystal structure of biosynthetic arginine decarboxylase adc (spea)2 from escherichia coli, northeast structural genomics consortium3 target er600
43c3btnA_



not modelled 99.7 15 PDB header:biosynthetic protein
Chain: A: PDB Molecule:antizyme inhibitor 1;
PDBTitle: crystal structure of antizyme inhibitor, an ornithine2 decarboxylase homologous protein
44c3n2oA_



not modelled 99.7 11 PDB header:lyase
Chain: A: PDB Molecule:biosynthetic arginine decarboxylase;
PDBTitle: x-ray crystal structure of arginine decarboxylase complexed with2 arginine from vibrio vulnificus
45c1d7kB_



not modelled 99.7 12 PDB header:lyase
Chain: B: PDB Molecule:human ornithine decarboxylase;
PDBTitle: crystal structure of human ornithine decarboxylase at 2.12 angstroms resolution
46c3nzpA_



not modelled 99.6 13 PDB header:lyase
Chain: A: PDB Molecule:arginine decarboxylase;
PDBTitle: crystal structure of the biosynthetic arginine decarboxylase spea from2 campylobacter jejuni, northeast structural genomics consortium target3 br53
47d1knwa2



not modelled 99.6 13 Fold:TIM beta/alpha-barrel
Superfamily:PLP-binding barrel
Family:Alanine racemase-like, N-terminal domain
48c3n29A_



not modelled 99.5 11 PDB header:lyase
Chain: A: PDB Molecule:carboxynorspermidine decarboxylase;
PDBTitle: crystal structure of carboxynorspermidine decarboxylase complexed with2 norspermidine from campylobacter jejuni
49c3mt1B_



not modelled 99.1 13 PDB header:lyase
Chain: B: PDB Molecule:putative carboxynorspermidine decarboxylase protein;
PDBTitle: crystal structure of putative carboxynorspermidine decarboxylase2 protein from sinorhizobium meliloti
50d1rpxa_



not modelled 95.4 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
51d2flia1



not modelled 94.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
52c2h90A_



not modelled 94.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
53d1h1ya_



not modelled 93.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
54c3hf3A_



not modelled 92.1 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:chromate reductase;
PDBTitle: old yellow enzyme from thermus scotoductus sa-01
55d1tqja_



not modelled 92.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
56c3ct7E_



not modelled 91.5 16 PDB header:isomerase
Chain: E: PDB Molecule:d-allulose-6-phosphate 3-epimerase;
PDBTitle: crystal structure of d-allulose 6-phosphate 3-epimerase2 from escherichia coli k-12
57d1djqa1



not modelled 91.2 10 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
58d1ps9a1



not modelled 91.2 14 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
59c2y85D_



not modelled 91.0 12 PDB header:isomerase
Chain: D: PDB Molecule:phosphoribosyl isomerase a;
PDBTitle: crystal structure of mycobacterium tuberculosis phosphoribosyl2 isomerase with bound rcdrp
60d1tqxa_



not modelled 87.9 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
61c1djnB_



not modelled 87.6 10 PDB header:oxidoreductase
Chain: B: PDB Molecule:trimethylamine dehydrogenase;
PDBTitle: structural and biochemical characterization of recombinant wild type2 trimethylamine dehydrogenase from methylophilus methylotrophus (sp.3 w3a1)
62c3inpA_



not modelled 86.7 10 PDB header:isomerase
Chain: A: PDB Molecule:d-ribulose-phosphate 3-epimerase;
PDBTitle: 2.05 angstrom resolution crystal structure of d-ribulose-phosphate 3-2 epimerase from francisella tularensis.
63c3k30B_



not modelled 86.3 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:histamine dehydrogenase;
PDBTitle: histamine dehydrogenase from nocardiodes simplex
64c2vwtA_



not modelled 85.8 14 PDB header:lyase
Chain: A: PDB Molecule:yfau, 2-keto-3-deoxy sugar aldolase;
PDBTitle: crystal structure of yfau, a metal ion dependent class ii2 aldolase from escherichia coli k12 - mg-pyruvate product3 complex
65c1ps9A_



not modelled 82.9 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,4-dienoyl-coa reductase;
PDBTitle: the crystal structure and reaction mechanism of e. coli 2,4-2 dienoyl coa reductase
66c3qz6A_



not modelled 80.7 10 PDB header:lyase
Chain: A: PDB Molecule:hpch/hpai aldolase;
PDBTitle: the crystal structure of hpch/hpai aldolase from desulfitobacterium2 hafniense dcb-2
67d1dxea_



not modelled 79.7 13 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
68c2v5jB_



not modelled 79.4 12 PDB header:lyase
Chain: B: PDB Molecule:2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase;
PDBTitle: apo class ii aldolase hpch
69c1izcA_



not modelled 79.1 14 PDB header:lyase
Chain: A: PDB Molecule:macrophomate synthase intermolecular diels-alderase;
PDBTitle: crystal structure analysis of macrophomate synthase
70d1izca_



not modelled 79.1 14 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
71d1qapa1



not modelled 76.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
72d1v6ta_



not modelled 75.6 14 Fold:7-stranded beta/alpha barrel
Superfamily:Glycoside hydrolase/deacetylase
Family:LamB/YcsF-like
73d2dfaa1



not modelled 72.3 19 Fold:7-stranded beta/alpha barrel
Superfamily:Glycoside hydrolase/deacetylase
Family:LamB/YcsF-like
74d1o4ua1



not modelled 70.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
75c3cu2A_



not modelled 67.5 6 PDB header:isomerase
Chain: A: PDB Molecule:ribulose-5-phosphate 3-epimerase;
PDBTitle: crystal structure of ribulose-5-phosphate 3-epimerase (yp_718263.1)2 from haemophilus somnus 129pt at 1.91 a resolution
76c3gr7A_



not modelled 64.9 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
77c3l5aA_



not modelled 62.5 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadh/flavin oxidoreductase/nadh oxidase;
PDBTitle: crystal structure of a probable nadh-dependent flavin oxidoreductase2 from staphylococcus aureus
78c3kruC_



not modelled 61.7 13 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh:flavin oxidoreductase/nadh oxidase;
PDBTitle: crystal structure of the thermostable old yellow enzyme from2 thermoanaerobacter pseudethanolicus e39
79d1vyra_



not modelled 58.3 11 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
80c2gq8A_



not modelled 57.6 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:oxidoreductase, fmn-binding;
PDBTitle: structure of sye1, an oye homologue from s. ondeidensis, in complex2 with p-hydroxyacetophenone
81d1qo2a_



not modelled 56.9 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
82c3qc3B_



not modelled 56.2 16 PDB header:isomerase
Chain: B: PDB Molecule:d-ribulose-5-phosphate-3-epimerase;
PDBTitle: crystal structure of a d-ribulose-5-phosphate-3-epimerase (np_954699)2 from homo sapiens at 2.20 a resolution
83c2yciX_



not modelled 55.7 9 PDB header:transferase
Chain: X: PDB Molecule:5-methyltetrahydrofolate corrinoid/iron sulfur protein
PDBTitle: methyltransferase native
84c2c3zA_



not modelled 52.5 12 PDB header:lyase
Chain: A: PDB Molecule:indole-3-glycerol phosphate synthase;
PDBTitle: crystal structure of a truncated variant of indole-3-2 glycerol phosphate synthase from sulfolobus solfataricus
85d1y0ea_



not modelled 51.0 11 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
86c2x5eA_



not modelled 48.9 15 PDB header:unknown function
Chain: A: PDB Molecule:upf0271 protein pa4511;
PDBTitle: crystal structure of the hypothetical protein pa4511 from2 pseudomonas aeruginosa
87d1qpoa1



not modelled 47.1 8 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
88d1gwja_



not modelled 46.8 14 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
89d1gvfa_



not modelled 45.2 12 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class II FBP aldolase
90d1z41a1



not modelled 44.6 12 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
91d1vc4a_



not modelled 42.8 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
92c2zviB_



not modelled 42.8 15 PDB header:isomerase
Chain: B: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate
PDBTitle: crystal structure of 2,3-diketo-5-methylthiopentyl-1-2 phosphate enolase from bacillus subtilis
93c2vkzH_



not modelled 40.7 12 PDB header:transferase
Chain: H: PDB Molecule:fatty acid synthase subunit beta;
PDBTitle: structure of the cerulenin-inhibited fungal fatty acid2 synthase type i multienzyme complex
94d1vzwa1



not modelled 39.7 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
95c2v82A_



not modelled 39.0 13 PDB header:lyase
Chain: A: PDB Molecule:2-dehydro-3-deoxy-6-phosphogalactonate aldolase;
PDBTitle: kdpgal complexed to kdpgal
96c1yadD_



not modelled 38.4 12 PDB header:transcription
Chain: D: PDB Molecule:regulatory protein teni;
PDBTitle: structure of teni from bacillus subtilis
97c2qv5A_



not modelled 36.4 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein atu2773;
PDBTitle: crystal structure of uncharacterized protein atu2773 from2 agrobacterium tumefaciens c58
98d1wbha1



not modelled 36.4 15 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
99c2dzaA_



not modelled 35.3 14 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: crystal structure of dihydropteroate synthase from thermus2 thermophilus hb8 in complex with 4-aminobenzoate
100c2oemA_



not modelled 34.5 15 PDB header:isomerase
Chain: A: PDB Molecule:2,3-diketo-5-methylthiopentyl-1-phosphate enolase;
PDBTitle: crystal structure of a rubisco-like protein from geobacillus2 kaustophilus liganded with mg2+ and 2,3-diketohexane 1-phosphate
101d1ka9f_



not modelled 34.4 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
102c1rr2A_



not modelled 33.0 12 PDB header:transferase
Chain: A: PDB Molecule:transcarboxylase 5s subunit;
PDBTitle: propionibacterium shermanii transcarboxylase 5s subunit bound to 2-2 ketobutyric acid
103d1ajza_



not modelled 32.8 17 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
104c3atyA_



not modelled 31.1 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:prostaglandin f2a synthase;
PDBTitle: crystal structure of tcoye
105c2jfqA_



not modelled 26.9 10 PDB header:isomerase
Chain: A: PDB Molecule:glutamate racemase;
PDBTitle: crystal structure of staphylococcus aureus glutamate2 racemase in complex with d-glutamate
106c3gkaB_



not modelled 26.6 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:n-ethylmaleimide reductase;
PDBTitle: crystal structure of n-ethylmaleimidine reductase from2 burkholderia pseudomallei
107d1thfd_



not modelled 23.0 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
108d2zdra2



not modelled 21.6 13 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:NeuB-like
109c3ju3A_



not modelled 21.6 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 2-oxoacid ferredoxin oxidoreductase, alpha chain;
PDBTitle: crystal structure of alpha chain of probable 2-oxoacid ferredoxin2 oxidoreductase from thermoplasma acidophilum
110c2x7vA_



not modelled 20.1 7 PDB header:hydrolase
Chain: A: PDB Molecule:probable endonuclease 4;
PDBTitle: crystal structure of thermotoga maritima endonuclease iv in2 the presence of zinc

Binding site prediction 

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite



Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
 
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
 
© Structural Bioinformatics Group
Imperial College London
Lawrence Kelley, Benjamin Jefferys
Disclaimer
Terms and Conditions
Component software
Template detection: HHpred 1.51
Secondary structure prediction: Psi-pred 2.5
Disorder prediction: Disopred 2.4
Transmembrane prediction: Memsat_SVM
Multi-template modelling and ab initio: Poing 1.0