Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AD61
DateThu Jan 5 11:20:06 GMT 2012
Unique Job ID342435d3803d8d22

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2e28A_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure analysis of pyruvate kinase from bacillus2 stearothermophilus
Confidence and coverage
Confidence:100.0% Coverage:100%
468 residues (100% 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  MKKTKIVCTIGPKTESEEMLAKMLDAGMNVMRLNFSHGDYAEHGQRIQNLRNVMSKTGKT
Secondary structure 
SS confidence 
Disorder  ????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  AAILLDTKGPEIRTMKLEGGNDVSLKAGQTFTFTTDKSVIGNSEMVAVTYEGFTTDLSVG
Secondary structure 
SS confidence 
Disorder 
??
??
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  NTVLVDDGLIGMEVTAIEGNKVICKVLNNGDLGENKGVNLPGVSIALPALAEKDKQDLIF
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  GCEQGVDFVAASFIRKRSDVIEIREHLKAHGGENIHIISKIENQEGLNNFDEILEASDGI
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  MVARGDLGVEIPVEEVIFAQKMMIEKCIRARKVVITATQMLDSMIKNPRPTRAEAGDVAN
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  AILDGTDAVMLSGESAKGKYPLEAVSIMATICERTDRVMNSRLEFNNDNRKLRITEAVCR
Secondary structure 
SS confidence 
Disorder 
?
?
?????????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  GAVETAEKLDAPLIVVATQGGKSARAVRKYFPDATILALTTNEKTAHQLVLSKGVVPQLV
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.........450.........460.........470
Sequence  KEITSTDDFYRLGKELALQSGLAHKGDVVVMVSGALVPSGTTNTASVHVL
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 2e28 chain A

3D model

Region: 1 - 470
Aligned: 468
Modelled: 470
Confidence: 100.0%
Identity: 52%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure analysis of pyruvate kinase from bacillus2 stearothermophilus

Phyre2

PDB 3t07 chain D

3D model

Region: 1 - 470
Aligned: 467
Modelled: 470
Confidence: 100.0%
Identity: 48%
PDB header:transferase/transferase inhibitor
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of s. aureus pyruvate kinase in complex with a2 naturally occurring bis-indole alkaloid

Phyre2

PDB 1t5a chain B

3D model

Region: 1 - 470
Aligned: 469
Modelled: 470
Confidence: 100.0%
Identity: 49%
PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase, m2 isozyme;
PDBTitle: human pyruvate kinase m2

Phyre2

PDB 1aqf chain B

3D model

Region: 1 - 470
Aligned: 469
Modelled: 470
Confidence: 100.0%
Identity: 49%
PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from rabbit muscle with mg, k, and l-2 phospholactate

Phyre2

PDB 3ma8 chain A

3D model

Region: 1 - 470
Aligned: 462
Modelled: 470
Confidence: 100.0%
Identity: 44%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of cgd1_2040, a pyruvate kinase from cryptosporidium2 parvum

Phyre2

PDB 3e0v chain B

3D model

Region: 1 - 470
Aligned: 464
Modelled: 470
Confidence: 100.0%
Identity: 44%
PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from leishmania mexicana in2 complex with sulphate ions

Phyre2

PDB 1a3w chain B

3D model

Region: 1 - 470
Aligned: 467
Modelled: 470
Confidence: 100.0%
Identity: 43%
PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from saccharomyces cerevisiae complexed with fbp, pg,2 mn2+ and k+

Phyre2

PDB 3eoe chain C

3D model

Region: 1 - 470
Aligned: 459
Modelled: 470
Confidence: 100.0%
Identity: 47%
PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from toxoplasma gondii, 55.m00007

Phyre2

PDB 1pkl chain B

3D model

Region: 1 - 456
Aligned: 454
Modelled: 455
Confidence: 100.0%
Identity: 44%
PDB header:transferase
Chain: B: PDB Molecule:protein (pyruvate kinase);
PDBTitle: the structure of leishmania pyruvate kinase

Phyre2

PDB 2vgb chain B

3D model

Region: 1 - 470
Aligned: 447
Modelled: 470
Confidence: 100.0%
Identity: 48%
PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase isozymes r/l;
PDBTitle: human erythrocyte pyruvate kinase

Phyre2

PDB 1e0t chain D

3D model

Region: 1 - 470
Aligned: 446
Modelled: 470
Confidence: 100.0%
Identity: 99%
PDB header:phosphotransferase
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: r292d mutant of e. coli pyruvate kinase

Phyre2

PDB 3khd chain C

3D model

Region: 2 - 470
Aligned: 352
Modelled: 379
Confidence: 100.0%
Identity: 53%
PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pff1300w.

Phyre2

PDB 1pkl chain A domain 2

3D model

Region: 1 - 339
Aligned: 241
Modelled: 242
Confidence: 100.0%
Identity: 56%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate kinase

Phyre2

PDB 2g50 chain A domain 2

3D model

Region: 1 - 346
Aligned: 253
Modelled: 254
Confidence: 100.0%
Identity: 59%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate kinase

Phyre2

PDB 1a3x chain A domain 2

3D model

Region: 1 - 346
Aligned: 247
Modelled: 248
Confidence: 100.0%
Identity: 58%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate kinase

Phyre2

PDB 1liu chain A domain 2

3D model

Region: 1 - 346
Aligned: 253
Modelled: 255
Confidence: 100.0%
Identity: 55%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate kinase

Phyre2

PDB 1e0t chain A domain 2

3D model

Region: 1 - 344
Aligned: 231
Modelled: 246
Confidence: 100.0%
Identity: 100%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate kinase

Phyre2

PDB 1e0t chain A domain 3

3D model

Region: 354 - 470
Aligned: 117
Modelled: 117
Confidence: 100.0%
Identity: 100%
Fold: Pyruvate kinase C-terminal domain-like
Superfamily: PK C-terminal domain-like
Family: Pyruvate kinase, C-terminal domain

Phyre2

PDB 1liu chain A domain 3

3D model

Region: 346 - 470
Aligned: 125
Modelled: 125
Confidence: 100.0%
Identity: 34%
Fold: Pyruvate kinase C-terminal domain-like
Superfamily: PK C-terminal domain-like
Family: Pyruvate kinase, C-terminal domain

Phyre2

PDB 2g50 chain A domain 3

3D model

Region: 346 - 470
Aligned: 125
Modelled: 125
Confidence: 100.0%
Identity: 34%
Fold: Pyruvate kinase C-terminal domain-like
Superfamily: PK C-terminal domain-like
Family: Pyruvate kinase, C-terminal domain

Phyre2
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c2e28A_
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c3t07D_
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c1t5aB_
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c1aqfB_
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c3ma8A_
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c3e0vB_
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c1a3wB_
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c3eoeC_
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c1pklB_
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c2vgbB_
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c1e0tD_
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c3khdC_
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d1pkla2
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d2g50a2
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d1a3xa2
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d1liua2
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d1e0ta2
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d1e0ta3
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d1liua3
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d2g50a3
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2e28A_
100.0 52 PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure analysis of pyruvate kinase from bacillus2 stearothermophilus
2c3t07D_
100.0 48 PDB header:transferase/transferase inhibitor
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of s. aureus pyruvate kinase in complex with a2 naturally occurring bis-indole alkaloid
3c1t5aB_
100.0 49 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase, m2 isozyme;
PDBTitle: human pyruvate kinase m2
4c1aqfB_
100.0 49 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from rabbit muscle with mg, k, and l-2 phospholactate
5c3ma8A_
100.0 44 PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of cgd1_2040, a pyruvate kinase from cryptosporidium2 parvum
6c3e0vB_
100.0 44 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from leishmania mexicana in2 complex with sulphate ions
7c1a3wB_
100.0 43 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from saccharomyces cerevisiae complexed with fbp, pg,2 mn2+ and k+
8c3eoeC_
100.0 47 PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from toxoplasma gondii, 55.m00007
9c1pklB_
100.0 44 PDB header:transferase
Chain: B: PDB Molecule:protein (pyruvate kinase);
PDBTitle: the structure of leishmania pyruvate kinase
10c2vgbB_
100.0 48 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase isozymes r/l;
PDBTitle: human erythrocyte pyruvate kinase
11c1e0tD_
100.0 99 PDB header:phosphotransferase
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: r292d mutant of e. coli pyruvate kinase
12c3khdC_
100.0 53 PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pff1300w.
13d1pkla2
100.0 56 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
14d2g50a2
100.0 59 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
15d1a3xa2
100.0 58 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
16d1liua2
100.0 55 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
17d1e0ta2
100.0 100 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
18d1e0ta3
100.0 100 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:Pyruvate kinase, C-terminal domain
19d1liua3
100.0 34 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:Pyruvate kinase, C-terminal domain
20d2g50a3
100.0 34 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:Pyruvate kinase, C-terminal domain
21d1pkla3
not modelled 100.0 28 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:Pyruvate kinase, C-terminal domain
22d1a3xa3
not modelled 99.9 32 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:Pyruvate kinase, C-terminal domain
23d1e0ta1
not modelled 99.9 100 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
24d2g50a1
not modelled 99.8 39 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
25d1pkma1
not modelled 99.8 39 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
26d1liua1
not modelled 99.8 41 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
27d1a3xa1
not modelled 99.8 33 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
28d1pkla1
not modelled 99.8 32 Fold:PK beta-barrel domain-like
Superfamily:PK beta-barrel domain-like
Family:Pyruvate kinase beta-barrel domain
29d1dxea_
not modelled 99.1 21 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
30c2v5jB_
not modelled 99.1 16 PDB header:lyase
Chain: B: PDB Molecule:2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase;
PDBTitle: apo class ii aldolase hpch
31c2vwtA_
not modelled 99.0 19 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
32c3qz6A_
not modelled 99.0 18 PDB header:lyase
Chain: A: PDB Molecule:hpch/hpai aldolase;
PDBTitle: the crystal structure of hpch/hpai aldolase from desulfitobacterium2 hafniense dcb-2
33c1sgjB_
not modelled 98.9 15 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase, beta subunit;
PDBTitle: crystal structure of citrate lyase beta subunit
34d1sgja_
not modelled 98.9 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
35c3qllB_
not modelled 98.8 18 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase;
PDBTitle: crystal structure of ripc from yersinia pestis
36d1izca_
not modelled 98.8 20 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
37c1izcA_
not modelled 98.8 20 PDB header:lyase
Chain: A: PDB Molecule:macrophomate synthase intermolecular diels-alderase;
PDBTitle: crystal structure analysis of macrophomate synthase
38c3qqwC_
not modelled 98.4 13 PDB header:lyase
Chain: C: PDB Molecule:putative citrate lyase;
PDBTitle: crystal structure of a hypothetical lyase (reut_b4148) from ralstonia2 eutropha jmp134 at 2.44 a resolution
39c1u5vA_
not modelled 98.4 18 PDB header:lyase
Chain: A: PDB Molecule:cite;
PDBTitle: structure of cite complexed with triphosphate group of atp2 form mycobacterium tuberculosis
40d1u5ha_
not modelled 98.3 18 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
41c3r4iB_
not modelled 98.1 14 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase;
PDBTitle: crystal structure of a citrate lyase (bxe_b2899) from burkholderia2 xenovorans lb400 at 2.24 a resolution
42c3cuzA_
not modelled 97.7 16 PDB header:transferase
Chain: A: PDB Molecule:malate synthase a;
PDBTitle: atomic resolution structures of escherichia coli and2 bacillis anthracis malate synthase a: comparison with3 isoform g and implications for structure based drug design
43c2hroA_
not modelled 97.6 14 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the full-lenght enzyme i of the pts system from2 staphylococcus carnosus
44c3pugA_
not modelled 97.6 10 PDB header:transferase
Chain: A: PDB Molecule:malate synthase;
PDBTitle: haloferax volcanii malate synthase native at 3mm glyoxylate
45c2bg5C_
not modelled 97.6 13 PDB header:transferase
Chain: C: PDB Molecule:phosphoenolpyruvate-protein kinase;
PDBTitle: crystal structure of the phosphoenolpyruvate-binding enzyme2 i-domain from the thermoanaerobacter tengcongensis pep:3 sugar phosphotransferase system (pts)
46c2hwgA_
not modelled 97.5 14 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of phosphorylated enzyme i of the2 phosphoenolpyruvate:sugar phosphotransferase system
47c2olsA_
not modelled 97.4 22 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate synthase;
PDBTitle: the crystal structure of the phosphoenolpyruvate synthase from2 neisseria meningitidis
48c1kblA_
not modelled 97.4 15 PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: pyruvate phosphate dikinase
49c1zfjA_
not modelled 97.3 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine monophosphate dehydrogenase;
PDBTitle: inosine monophosphate dehydrogenase (impdh; ec 1.1.1.205) from2 streptococcus pyogenes
50c1h6zA_
not modelled 97.3 17 PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: 3.0 a resolution crystal structure of glycosomal pyruvate2 phosphate dikinase from trypanosoma brucei
51c3cuxA_
not modelled 97.1 18 PDB header:transferase
Chain: A: PDB Molecule:malate synthase;
PDBTitle: atomic resolution structures of escherichia coli and2 bacillis anthracis malate synthase a: comparison with3 isoform g and implications for structure based drug design
52d1vbga1
not modelled 97.1 18 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
53d1kbla1
not modelled 97.1 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
54c1vbhA_
not modelled 96.9 17 PDB header:transferase
Chain: A: PDB Molecule:pyruvate,orthophosphate dikinase;
PDBTitle: pyruvate phosphate dikinase with bound mg-pep from maize
55d1h6za1
not modelled 96.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
56d1jr1a1
not modelled 96.6 22 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
57c3odmE_
not modelled 96.6 22 PDB header:lyase
Chain: E: PDB Molecule:phosphoenolpyruvate carboxylase;
PDBTitle: archaeal-type phosphoenolpyruvate carboxylase
58c1jcnA_
not modelled 96.1 18 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
59d1zfja1
not modelled 95.8 20 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
60c3f4wA_
not modelled 94.0 12 PDB header:synthase, lyase
Chain: A: PDB Molecule:putative hexulose 6 phosphate synthase;
PDBTitle: the 1.65a crystal structure of 3-hexulose-6-phosphate2 synthase from salmonella typhimurium
61d1t57a_
not modelled 94.0 21 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:MTH1675-like
62c3gndC_
not modelled 93.6 16 PDB header:lyase
Chain: C: PDB Molecule:aldolase lsrf;
PDBTitle: crystal structure of e. coli lsrf in complex with ribulose-5-phosphate
63c3khjE_
not modelled 93.6 18 PDB header:oxidoreductase
Chain: E: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: c. parvum inosine monophosphate dehydrogenase bound by inhibitor c64
64c3bo9B_
not modelled 93.6 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nitroalkan dioxygenase;
PDBTitle: crystal structure of putative nitroalkan dioxygenase (tm0800) from2 thermotoga maritima at 2.71 a resolution
65d2flia1
not modelled 93.5 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
66d1xcfa_
not modelled 93.2 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
67c2gjlA_
not modelled 92.9 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein pa1024;
PDBTitle: crystal structure of 2-nitropropane dioxygenase
68c3r2gA_
not modelled 92.5 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine 5'-monophosphate dehydrogenase;
PDBTitle: crystal structure of inosine 5' monophosphate dehydrogenase from2 legionella pneumophila
69c2h90A_
not modelled 92.4 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
70d1h1ya_
not modelled 92.2 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
71d1vp8a_
not modelled 91.7 25 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:MTH1675-like
72c2qr6A_
not modelled 90.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:imp dehydrogenase/gmp reductase;
PDBTitle: crystal structure of imp dehydrogenase/gmp reductase-like protein2 (np_599840.1) from corynebacterium glutamicum atcc 13032 kitasato at3 1.50 a resolution
73c1vrdA_
not modelled 90.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine-5'-monophosphate dehydrogenase;
PDBTitle: crystal structure of inosine-5'-monophosphate dehydrogenase (tm1347)2 from thermotoga maritima at 2.18 a resolution
74d1vrda1
not modelled 88.7 18 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
75d1ps9a1
not modelled 88.3 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
76d1y0ea_
not modelled 88.2 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
77c3ffsC_
not modelled 87.2 21 PDB header:oxidoreductase
Chain: C: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: the crystal structure of cryptosporidium parvum inosine-5'-2 monophosphate dehydrogenase
78c2z6jB_
not modelled 86.4 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:trans-2-enoyl-acp reductase ii;
PDBTitle: crystal structure of s. pneumoniae enoyl-acyl carrier2 protein reductase (fabk) in complex with an inhibitor
79c3nm3D_
not modelled 86.4 16 PDB header:transferase
Chain: D: PDB Molecule:thiamine biosynthetic bifunctional enzyme;
PDBTitle: the crystal structure of candida glabrata thi6, a bifunctional enzyme2 involved in thiamin biosyhthesis of eukaryotes
80d1rpxa_
not modelled 85.9 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
81c2vp8A_
not modelled 85.8 11 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase 2;
PDBTitle: structure of mycobacterium tuberculosis rv1207
82d1kbia1
not modelled 84.1 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
83d1ojxa_
not modelled 83.9 16 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
84c3igsB_
not modelled 82.3 17 PDB header:isomerase
Chain: B: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase 2;
PDBTitle: structure of the salmonella enterica n-acetylmannosamine-6-phosphate2 2-epimerase
85c2y0fD_
not modelled 82.2 16 PDB header:oxidoreductase
Chain: D: PDB Molecule:4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase;
PDBTitle: structure of gcpe (ispg) from thermus thermophilus hb27
86c3inpA_
not modelled 81.8 8 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.
87c3ct7E_
not modelled 81.6 10 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
88c3cwcB_
not modelled 81.2 17 PDB header:transferase
Chain: B: PDB Molecule:putative glycerate kinase 2;
PDBTitle: crystal structure of putative glycerate kinase 2 from salmonella2 typhimurium lt2
89d1f76a_
not modelled 80.6 13 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
90d1tqja_
not modelled 80.2 9 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
91c3qc3B_
not modelled 79.7 9 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
92d2tpsa_
not modelled 79.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Thiamin phosphate synthase
Family:Thiamin phosphate synthase
93c2qjhH_
not modelled 78.9 20 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
94d1jqoa_
not modelled 78.7 17 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate carboxylase
95c1jqoA_
not modelled 78.7 17 PDB header:lyase
Chain: A: PDB Molecule:phosphoenolpyruvate carboxylase;
PDBTitle: crystal structure of c4-form phosphoenolpyruvate carboxylase from2 maize
96c2p10D_
not modelled 78.4 13 PDB header:hydrolase
Chain: D: PDB Molecule:mll9387 protein;
PDBTitle: crystal structure of a putative phosphonopyruvate hydrolase (mll9387)2 from mesorhizobium loti maff303099 at 2.15 a resolution
97d1eepa_
not modelled 78.0 22 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
98d1vcva1
not modelled 77.8 18 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
99d1ajza_
not modelled 77.1 17 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
100c3qjaA_
not modelled 76.1 12 PDB header:lyase
Chain: A: PDB Molecule:indole-3-glycerol phosphate synthase;
PDBTitle: crystal structure of the mycobacterium tuberculosis indole-3-glycerol2 phosphate synthase (trpc) in apo form
101c2htmB_
not modelled 75.7 14 PDB header:biosynthetic protein
Chain: B: PDB Molecule:thiazole biosynthesis protein thig;
PDBTitle: crystal structure of ttha0676 from thermus thermophilus hb8
102c3q58A_
not modelled 75.5 23 PDB header:isomerase
Chain: A: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase;
PDBTitle: structure of n-acetylmannosamine-6-phosphate epimerase from salmonella2 enterica
103d1tqxa_
not modelled 74.9 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
104d2cu0a1
not modelled 74.9 24 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
105d1jqna_
not modelled 74.0 20 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate carboxylase
106d3bofa1
not modelled 73.9 13 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Methyltetrahydrofolate-utiluzing methyltransferases
107d1jcna1
not modelled 72.7 20 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
108c3thaB_
not modelled 72.6 9 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni.
109c3ktsA_
not modelled 71.1 20 PDB header:transcriptional regulator
Chain: A: PDB Molecule:glycerol uptake operon antiterminator regulatory protein;
PDBTitle: crystal structure of glycerol uptake operon antiterminator regulatory2 protein from listeria monocytogenes str. 4b f2365
110c2fptA_
not modelled 70.5 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydroorotate dehydrogenase, mitochondrial;
PDBTitle: dual binding mode of a novel series of dhodh inhibitors
111d1q6oa_
not modelled 69.5 11 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Decarboxylase
112c3pg8B_
not modelled 69.4 18 PDB header:transferase
Chain: B: PDB Molecule:phospho-2-dehydro-3-deoxyheptonate aldolase;
PDBTitle: truncated form of 3-deoxy-d-arabino-heptulosonate 7-phosphate synthase2 from thermotoga maritima
113c2v82A_
not modelled 69.3 12 PDB header:lyase
Chain: A: PDB Molecule:2-dehydro-3-deoxy-6-phosphogalactonate aldolase;
PDBTitle: kdpgal complexed to kdpgal
114d1pvna1
not modelled 69.1 16 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
115c3tr9A_
not modelled 67.8 17 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: structure of a dihydropteroate synthase (folp) in complex with pteroic2 acid from coxiella burnetii
116c1ps9A_
not modelled 67.6 18 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
117c2vefB_
not modelled 67.0 16 PDB header:transferase
Chain: B: PDB Molecule:dihydropteroate synthase;
PDBTitle: dihydropteroate synthase from streptococcus pneumoniae
118d1xi3a_
not modelled 67.0 14 Fold:TIM beta/alpha-barrel
Superfamily:Thiamin phosphate synthase
Family:Thiamin phosphate synthase
119d1tx2a_
not modelled 67.0 19 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
120c1tx2A_
not modelled 67.0 19 PDB header:transferase
Chain: A: PDB Molecule:dhps, dihydropteroate synthase;
PDBTitle: dihydropteroate synthetase, with bound inhibitor manic, from bacillus2 anthracis

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