Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP75682
DateThu Jan 5 12:13:03 GMT 2012
Unique Job ID680ddef5808403e7

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2v9dB_
Top template information
PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
Confidence and coverage
Confidence:100.0% Coverage: 99%
298 residues ( 99% 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  MPQSALFTGIIPPVSTIFTADGQLDKPGTAALIDDLIKAGVDGLFFLGSGGEFSQLGAEE
Secondary structure 
SS confidence 
Disorder  ?????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  RKAIARFAIDHVDRRVPVLIGTGGTNARETIELSQHAQQAGADGIVVINPYYWKVSEANL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  IRYFEQVADSVTLPVMLYNFPALTGQDLTPALVKTLADSRSNIIGIKDTIDSVAHLRSMI
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  HTVKGAHPHFTVLCGYDDHLFNTLLLGGDGAISASGNFAPQVSVNLLKAWRDGDVAKAAG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  YHQTLLQIPQMYQLDTPFVNVIKEAIVLCGRPVSTHVLPPASPLDEPRKAQLKTLLQQLK
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   ..
Sequence  LC
Secondary structure 
SS confidence 
Disorder  ??
Disorder confidence 
 

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 2v9d chain B

3D model

Region: 5 - 302
Aligned: 298
Modelled: 298
Confidence: 100.0%
Identity: 99%
PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12

Phyre2

PDB 3n2x chain B

3D model

Region: 5 - 302
Aligned: 297
Modelled: 298
Confidence: 100.0%
Identity: 100%
PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate

Phyre2

PDB 3g0s chain A

3D model

Region: 3 - 301
Aligned: 294
Modelled: 296
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2

Phyre2

PDB 2a6n chain A domain 1

3D model

Region: 6 - 301
Aligned: 291
Modelled: 293
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3si9 chain B

3D model

Region: 5 - 301
Aligned: 292
Modelled: 294
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae

Phyre2

PDB 1xxx chain A domain 1

3D model

Region: 1 - 301
Aligned: 293
Modelled: 301
Confidence: 100.0%
Identity: 25%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3flu chain D

3D model

Region: 5 - 301
Aligned: 291
Modelled: 297
Confidence: 100.0%
Identity: 32%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis

Phyre2

PDB 3noe chain A

3D model

Region: 6 - 301
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa

Phyre2

PDB 3bi8 chain A

3D model

Region: 5 - 301
Aligned: 290
Modelled: 297
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum

Phyre2

PDB 1o5k chain A

3D model

Region: 6 - 301
Aligned: 292
Modelled: 296
Confidence: 100.0%
Identity: 27%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 2ehh chain E

3D model

Region: 6 - 301
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 27%
PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus

Phyre2

PDB 3pue chain A

3D model

Region: 7 - 301
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution

Phyre2

PDB 2r8w chain B

3D model

Region: 2 - 300
Aligned: 296
Modelled: 297
Confidence: 100.0%
Identity: 24%
PDB header:lyase
Chain: B: PDB Molecule:agr_c_1641p;
PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58

Phyre2

PDB 1hl2 chain A

3D model

Region: 5 - 299
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 25%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3eb2 chain A

3D model

Region: 7 - 299
Aligned: 287
Modelled: 293
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution

Phyre2

PDB 1xky chain A domain 1

3D model

Region: 5 - 299
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 2yxg chain D

3D model

Region: 7 - 301
Aligned: 287
Modelled: 290
Confidence: 100.0%
Identity: 34%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)

Phyre2

PDB 1f74 chain A

3D model

Region: 1 - 301
Aligned: 291
Modelled: 301
Confidence: 100.0%
Identity: 24%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3lci chain A

3D model

Region: 7 - 299
Aligned: 287
Modelled: 293
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: A: PDB Molecule:n-acetylneuraminate lyase;
PDBTitle: the d-sialic acid aldolase mutant v251w

Phyre2

PDB 2rfg chain B

3D model

Region: 6 - 300
Aligned: 288
Modelled: 295
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from hahella2 chejuensis at 1.5a resolution

Phyre2
1
c2v9dB_
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c3n2xB_
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c3g0sA_
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d2a6na1
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c3si9B_
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d1xxxa1
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c3fluD_
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c3noeA_
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c3bi8A_
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d1o5ka_
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c2ehhE_
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c3pueA_
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c2r8wB_
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d1hl2a_
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c3eb2A_
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d1xkya1
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c2yxgD_
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d1f74a_
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c3lciA_
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c2rfgB_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2v9dB_
100.0 99 PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
2c3n2xB_
100.0 100 PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate
3c3g0sA_
100.0 28 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2
4d2a6na1
100.0 29 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
5c3si9B_
100.0 28 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae
6d1xxxa1
100.0 25 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
7c3fluD_
100.0 32 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis
8c3noeA_
100.0 30 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa
9c3bi8A_
100.0 30 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum
10d1o5ka_
100.0 27 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
11c2ehhE_
100.0 27 PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus
12c3pueA_
100.0 29 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution
13c2r8wB_
100.0 24 PDB header:lyase
Chain: B: PDB Molecule:agr_c_1641p;
PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58
14d1hl2a_
100.0 25 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
15c3eb2A_
100.0 29 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution
16d1xkya1
100.0 29 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
17c2yxgD_
100.0 34 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)
18d1f74a_
100.0 24 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
19c3lciA_
100.0 25 PDB header:lyase
Chain: A: PDB Molecule:n-acetylneuraminate lyase;
PDBTitle: the d-sialic acid aldolase mutant v251w
20c2rfgB_
100.0 31 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from hahella2 chejuensis at 1.5a resolution
21c2vc6A_
not modelled 100.0 25 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of mosa from s. meliloti with pyruvate bound
22c3na8A_
not modelled 100.0 27 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of a putative dihydrodipicolinate synthetase from2 pseudomonas aeruginosa
23c3s5oA_
not modelled 100.0 26 PDB header:lyase
Chain: A: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase, mitochondrial;
PDBTitle: crystal structure of human 4-hydroxy-2-oxoglutarate aldolase bound to2 pyruvate
24c3cprB_
not modelled 100.0 25 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthetase;
PDBTitle: the crystal structure of corynebacterium glutamicum2 dihydrodipicolinate synthase to 2.2 a resolution
25c3lerA_
not modelled 100.0 26 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 campylobacter jejuni subsp. jejuni nctc 11168
26c3h5dD_
not modelled 100.0 26 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from drug-resistant streptococcus2 pneumoniae
27c3daqB_
not modelled 100.0 27 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from methicillin-2 resistant staphylococcus aureus
28c3fkkA_
not modelled 100.0 26 PDB header:lyase
Chain: A: PDB Molecule:l-2-keto-3-deoxyarabonate dehydratase;
PDBTitle: structure of l-2-keto-3-deoxyarabonate dehydratase
29c3dz1A_
not modelled 100.0 19 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 1.87a resolution
30c3e96B_
not modelled 100.0 23 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 bacillus clausii
31d1w3ia_
not modelled 100.0 27 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
32c3d0cB_
not modelled 100.0 23 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 oceanobacillus iheyensis at 1.9 a resolution
33c2r94B_
not modelled 100.0 29 PDB header:lyase
Chain: B: PDB Molecule:2-keto-3-deoxy-(6-phospho-)gluconate aldolase;
PDBTitle: crystal structure of kd(p)ga from t.tenax
34c3qfeB_
not modelled 100.0 26 PDB header:lyase
Chain: B: PDB Molecule:putative dihydrodipicolinate synthase family protein;
PDBTitle: crystal structures of a putative dihydrodipicolinate synthase family2 protein from coccidioides immitis
35c2hmcA_
not modelled 100.0 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: the crystal structure of dihydrodipicolinate synthase dapa from2 agrobacterium tumefaciens
36c2nuxB_
not modelled 100.0 25 PDB header:lyase
Chain: B: PDB Molecule:2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho gluconate
PDBTitle: 2-keto-3-deoxygluconate aldolase from sulfolobus acidocaldarius,2 native structure in p6522 at 2.5 a resolution
37c3b4uB_
not modelled 100.0 24 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from agrobacterium2 tumefaciens str. c58
38c2pcqA_
not modelled 100.0 29 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthase;
PDBTitle: crystal structure of putative dihydrodipicolinate synthase (ttha0737)2 from thermus thermophilus hb8
39d1muma_
not modelled 98.3 20 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
40c3lyeA_
not modelled 98.2 17 PDB header:hydrolase
Chain: A: PDB Molecule:oxaloacetate acetyl hydrolase;
PDBTitle: crystal structure of oxaloacetate acetylhydrolase
41d1ujqa_
not modelled 98.0 17 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
42c2ze3A_
not modelled 98.0 20 PDB header:isomerase
Chain: A: PDB Molecule:dfa0005;
PDBTitle: crystal structure of dfa0005 complexed with alpha-ketoglutarate: a2 novel member of the icl/pepm superfamily from alkali-tolerant3 deinococcus ficus
43c3eooL_
not modelled 98.0 22 PDB header:lyase
Chain: L: PDB Molecule:methylisocitrate lyase;
PDBTitle: 2.9a crystal structure of methyl-isocitrate lyase from2 burkholderia pseudomallei
44c3ih1A_
not modelled 97.9 15 PDB header:lyase
Chain: A: PDB Molecule:methylisocitrate lyase;
PDBTitle: crystal structure of carboxyvinyl-carboxyphosphonate phosphorylmutase2 from bacillus anthracis
45c1zlpA_
not modelled 97.9 20 PDB header:lyase
Chain: A: PDB Molecule:petal death protein;
PDBTitle: petal death protein psr132 with cysteine-linked glutaraldehyde forming2 a thiohemiacetal adduct
46c3b8iF_
not modelled 97.9 22 PDB header:lyase
Chain: F: PDB Molecule:pa4872 oxaloacetate decarboxylase;
PDBTitle: crystal structure of oxaloacetate decarboxylase from pseudomonas2 aeruginosa (pa4872) in complex with oxalate and mg2+.
47c3fa4D_
not modelled 97.8 15 PDB header:lyase
Chain: D: PDB Molecule:2,3-dimethylmalate lyase;
PDBTitle: crystal structure of 2,3-dimethylmalate lyase, a pep mutase/isocitrate2 lyase superfamily member, triclinic crystal form
48d1s2wa_
not modelled 97.8 14 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
49c2qiwA_
not modelled 97.8 23 PDB header:transferase
Chain: A: PDB Molecule:pep phosphonomutase;
PDBTitle: crystal structure of a putative phosphoenolpyruvate phosphonomutase2 (ncgl1015, cgl1060) from corynebacterium glutamicum atcc 13032 at3 1.80 a resolution
50c2hjpA_
not modelled 97.7 15 PDB header:hydrolase
Chain: A: PDB Molecule:phosphonopyruvate hydrolase;
PDBTitle: crystal structure of phosphonopyruvate hydrolase complex with2 phosphonopyruvate and mg++
51d1xcfa_
not modelled 97.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
52c3thaB_
not modelled 97.2 13 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni.
53d1rbla1
not modelled 97.1 8 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
54d1j5ta_
not modelled 97.1 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
55c3gr7A_
not modelled 97.1 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
56c3ez4B_
not modelled 97.0 27 PDB header:transferase
Chain: B: PDB Molecule:3-methyl-2-oxobutanoate hydroxymethyltransferase;
PDBTitle: crystal structure of 3-methyl-2-oxobutanoate2 hydroxymethyltransferase from burkholderia pseudomallei
57d1geqa_
not modelled 96.9 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
58d1ps9a1
not modelled 96.9 22 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
59d1qopa_
not modelled 96.9 16 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
60d8ruca1
not modelled 96.9 6 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
61c2h90A_
not modelled 96.9 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
62c3navB_
not modelled 96.8 16 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961
63c3bolB_
not modelled 96.7 18 PDB header:transferase
Chain: B: PDB Molecule:5-methyltetrahydrofolate s-homocysteine
PDBTitle: cobalamin-dependent methionine synthase (1-566) from2 thermotoga maritima complexed with zn2+
64c2d69B_
not modelled 96.7 13 PDB header:lyase
Chain: B: PDB Molecule:ribulose bisphosphate carboxylase;
PDBTitle: crystal structure of the complex of sulfate ion and octameric2 ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) from3 pyrococcus horikoshii ot3 (form-2 crystal)
65c1ps9A_
not modelled 96.7 21 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
66d2d69a1
not modelled 96.7 14 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
67c3nwrA_
not modelled 96.7 16 PDB header:lyase
Chain: A: PDB Molecule:a rubisco-like protein;
PDBTitle: crystal structure of a rubisco-like protein from burkholderia fungorum
68d1piia2
not modelled 96.6 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
69d1svda1
not modelled 96.6 8 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
70d1yxya1
not modelled 96.6 9 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
71c1rcxH_
not modelled 96.5 12 PDB header:lyase (carbon-carbon)
Chain: H: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase;
PDBTitle: non-activated spinach rubisco in complex with its substrate2 ribulose-1,5-bisphosphate
72d1oy0a_
not modelled 96.5 26 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Ketopantoate hydroxymethyltransferase PanB
73d1ykwa1
not modelled 96.5 11 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
74d1f61a_
not modelled 96.4 22 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
75c3fk4A_
not modelled 96.4 20 PDB header:isomerase
Chain: A: PDB Molecule:rubisco-like protein;
PDBTitle: crystal structure of rubisco-like protein from bacillus2 cereus atcc 14579
76d1wdda1
not modelled 96.4 7 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
77c3hf3A_
not modelled 96.3 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:chromate reductase;
PDBTitle: old yellow enzyme from thermus scotoductus sa-01
78d1tv5a1
not modelled 96.3 12 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
79c1tv5A_
not modelled 96.3 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydroorotate dehydrogenase homolog, mitochondrial;
PDBTitle: plasmodium falciparum dihydroorotate dehydrogenase with a bound2 inhibitor
80d1f76a_
not modelled 96.3 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
81d1z41a1
not modelled 96.2 17 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
82d1geha1
not modelled 96.2 15 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
83d1gvfa_
not modelled 96.2 18 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class II FBP aldolase
84c1telA_
not modelled 96.2 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ribulose bisphosphate carboxylase, large subunit;
PDBTitle: crystal structure of a rubisco-like protein from chlorobium2 tepidum
85c2rduA_
not modelled 96.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyacid oxidase 1;
PDBTitle: crystal structure of human glycolate oxidase in complex with2 glyoxylate
86c3irsB_
not modelled 96.1 9 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein bb4693;
PDBTitle: crystal structure of uncharacterized tim-barrel protein bb4693 from2 bordetella bronchiseptica
87c3nurA_
not modelled 96.1 16 PDB header:hydrolase
Chain: A: PDB Molecule:amidohydrolase;
PDBTitle: crystal structure of a putative amidohydrolase from staphylococcus2 aureus
88c2e77B_
not modelled 96.0 17 PDB header:oxidoreductase
Chain: B: PDB Molecule:lactate oxidase;
PDBTitle: crystal structure of l-lactate oxidase with pyruvate complex
89c2cdh1_
not modelled 96.0 16 PDB header:transferase
Chain: 1: PDB Molecule:enoyl reductase;
PDBTitle: architecture of the thermomyces lanuginosus fungal fatty2 acid synthase at 5 angstrom resolution.
90d1vyra_
not modelled 96.0 11 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
91c2ekcA_
not modelled 95.9 14 PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5
92d1rd5a_
not modelled 95.9 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
93c3k30B_
not modelled 95.9 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:histamine dehydrogenase;
PDBTitle: histamine dehydrogenase from nocardiodes simplex
94d2f6ka1
not modelled 95.9 15 Fold:TIM beta/alpha-barrel
Superfamily:Metallo-dependent hydrolases
Family:PP1699/LP2961-like
95c3gndC_
not modelled 95.8 18 PDB header:lyase
Chain: C: PDB Molecule:aldolase lsrf;
PDBTitle: crystal structure of e. coli lsrf in complex with ribulose-5-phosphate
96d1bxna1
not modelled 95.8 12 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
97d1goxa_
not modelled 95.8 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
98c2zviB_
not modelled 95.8 14 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
99d1m3ua_
not modelled 95.7 24 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Ketopantoate hydroxymethyltransferase PanB
100c1jcnA_
not modelled 95.7 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine monophosphate dehydrogenase i;
PDBTitle: binary complex of human type-i inosine monophosphate dehydrogenase2 with 6-cl-imp
101d1tb3a1
not modelled 95.6 17 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
102d1bwva1
not modelled 95.6 11 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
103d1d3ga_
not modelled 95.5 17 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
104d2q02a1
not modelled 95.5 10 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:IolI-like
105c2c3zA_
not modelled 95.4 15 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
106d1to3a_
not modelled 95.4 17 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
107c3sqsA_
not modelled 95.4 11 PDB header:isomerase
Chain: A: PDB Molecule:mandelate racemase/muconate lactonizing protein;
PDBTitle: crystal structure of a putative mandelate racemase/muconate2 lactonizing protein from dinoroseobacter shibae dfl 12
108c1rldB_
not modelled 95.4 13 PDB header:lyase(carbon-carbon)
Chain: B: PDB Molecule:ribulose 1,5 bisphosphate carboxylase/oxygenase (large
PDBTitle: solid-state phase transition in the crystal structure of ribulose 1,5-2 biphosphate carboxylase(slash)oxygenase
109c2qjhH_
not modelled 95.3 17 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
110d1jpma1
not modelled 95.3 18 Fold:TIM beta/alpha-barrel
Superfamily:Enolase C-terminal domain-like
Family:D-glucarate dehydratase-like
111c2iswB_
not modelled 95.3 19 PDB header:lyase
Chain: B: PDB Molecule:putative fructose-1,6-bisphosphate aldolase;
PDBTitle: structure of giardia fructose-1,6-biphosphate aldolase in2 complex with phosphoglycolohydroxamate
112d1rpxa_
not modelled 95.3 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
113c1djnB_
not modelled 95.3 15 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)
114c1kbiB_
not modelled 95.2 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:cytochrome b2;
PDBTitle: crystallographic study of the recombinant flavin-binding domain of2 baker's yeast flavocytochrome b2: comparison with the intact wild-3 type enzyme
115c3qfwB_
not modelled 95.2 14 PDB header:lyase
Chain: B: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase large
PDBTitle: crystal structure of rubisco-like protein from rhodopseudomonas2 palustris
116d1ej7l1
not modelled 95.2 14 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
117c2oemA_
not modelled 95.2 17 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
118c2ftpA_
not modelled 95.1 13 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of hydroxymethylglutaryl-coa lyase from pseudomonas2 aeruginosa
119c3stgA_
not modelled 94.9 13 PDB header:transferase
Chain: A: PDB Molecule:2-dehydro-3-deoxyphosphooctonate aldolase;
PDBTitle: crystal structure of a58p, del(n59), and loop 7 truncated mutant of 3-2 deoxy-d-manno-octulosonate 8-phosphate synthase (kdo8ps) from3 neisseria meningitidis
120c2fptA_
not modelled 94.9 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydroorotate dehydrogenase, mitochondrial;
PDBTitle: dual binding mode of a novel series of dhodh inhibitors

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