Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP75960
DateThu Jan 5 12:16:29 GMT 2012
Unique Job ID892b8d873b87028d

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1s5pa_
Top template information
Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
Confidence and coverage
Confidence:100.0% Coverage: 93%
225 residues ( 93% 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  MEKPRVLVLTGAGISAESGIRTFRAADGLWEEHRVEDVATPEGFDRDPELVQAFYNARRR
Secondary structure 
SS confidence 
Disorder  ????
?
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  QLQQPEIQPNAAHLALAKLQDALGDRFLLVTQNIDNLHERAGNTNVIHMHGELLKVRCSQ
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  SGQVLDWTGDVTPEDKCHCCQFPAPLRPHVVWFGEMPLGMDEIYMALSMADIFIAIGTSG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  HVYPAAGFVHEAKLHGAHTVELNLEPSQVGNEFAEKYYGPASQVVPEFVEKLLKGLKAGS
Secondary structure 
SS confidence 
Disorder 
?????
Disorder confidence 
 
   ..
Sequence  IA
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 1s5p chain A

3D model

Region: 3 - 237
Aligned: 225
Modelled: 232
Confidence: 100.0%
Identity: 97%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 1m2k chain A

3D model

Region: 2 - 236
Aligned: 232
Modelled: 235
Confidence: 100.0%
Identity: 40%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 3jwp chain A

3D model

Region: 2 - 233
Aligned: 227
Modelled: 232
Confidence: 100.0%
Identity: 28%
PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein sir2 homologue;
PDBTitle: crystal structure of plasmodium falciparum sir2a (pf13_0152) in2 complex with amp

Phyre2

PDB 1j8f chain A

3D model

Region: 2 - 232
Aligned: 225
Modelled: 227
Confidence: 100.0%
Identity: 26%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 2hjh chain B

3D model

Region: 2 - 232
Aligned: 224
Modelled: 231
Confidence: 100.0%
Identity: 28%
PDB header:hydrolase
Chain: B: PDB Molecule:nad-dependent histone deacetylase sir2;
PDBTitle: crystal structure of the sir2 deacetylase

Phyre2

PDB 1yc5 chain A domain 1

3D model

Region: 2 - 232
Aligned: 216
Modelled: 231
Confidence: 100.0%
Identity: 31%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 3gls chain C

3D model

Region: 2 - 232
Aligned: 225
Modelled: 227
Confidence: 100.0%
Identity: 26%
PDB header:hydrolase
Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3,
PDBTitle: crystal structure of human sirt3

Phyre2

PDB 2b4y chain A domain 1

3D model

Region: 2 - 229
Aligned: 219
Modelled: 228
Confidence: 100.0%
Identity: 37%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 1q1a chain A

3D model

Region: 2 - 232
Aligned: 225
Modelled: 227
Confidence: 100.0%
Identity: 27%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 1q14 chain A

3D model

Region: 2 - 232
Aligned: 218
Modelled: 231
Confidence: 100.0%
Identity: 27%
PDB header:hydrolase
Chain: A: PDB Molecule:hst2 protein;
PDBTitle: structure and autoregulation of the yeast hst2 homolog of sir2

Phyre2

PDB 3k35 chain D

3D model

Region: 2 - 232
Aligned: 211
Modelled: 231
Confidence: 100.0%
Identity: 27%
PDB header:hydrolase
Chain: D: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: crystal structure of human sirt6

Phyre2

PDB 3pki chain F

3D model

Region: 2 - 232
Aligned: 211
Modelled: 212
Confidence: 100.0%
Identity: 26%
PDB header:hydrolase
Chain: F: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: human sirt6 crystal structure in complex with adp ribose

Phyre2

PDB 1ma3 chain A

3D model

Region: 2 - 239
Aligned: 223
Modelled: 235
Confidence: 100.0%
Identity: 35%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Sir2 family of transcriptional regulators

Phyre2

PDB 2ji7 chain A domain 1

3D model

Region: 163 - 232
Aligned: 70
Modelled: 70
Confidence: 97.2%
Identity: 16%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 2dji chain A domain 1

3D model

Region: 161 - 232
Aligned: 68
Modelled: 68
Confidence: 97.2%
Identity: 15%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 2ez9 chain A domain 1

3D model

Region: 161 - 232
Aligned: 68
Modelled: 68
Confidence: 97.0%
Identity: 13%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 1ybh chain A domain 1

3D model

Region: 161 - 235
Aligned: 73
Modelled: 75
Confidence: 97.0%
Identity: 14%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 1ozh chain A domain 1

3D model

Region: 162 - 232
Aligned: 67
Modelled: 71
Confidence: 96.8%
Identity: 19%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 1t9b chain A domain 1

3D model

Region: 161 - 232
Aligned: 72
Modelled: 72
Confidence: 96.8%
Identity: 15%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2

PDB 2iht chain A domain 1

3D model

Region: 162 - 232
Aligned: 69
Modelled: 71
Confidence: 96.7%
Identity: 9%
Fold: DHS-like NAD/FAD-binding domain
Superfamily: DHS-like NAD/FAD-binding domain
Family: Pyruvate oxidase and decarboxylase, middle domain

Phyre2
1
d1s5pa_
2
d1m2ka_
3
c3jwpA_
4
d1j8fa_
5
c2hjhB_
6
d1yc5a1
7
c3glsC_
8
d2b4ya1
9
d1q1aa_
10
c1q14A_
11
c3k35D_
12
c3pkiF_
13
d1ma3a_
14
d2ji7a1
15
d2djia1
16
d2ez9a1
17
d1ybha1
18
d1ozha1
19
d1t9ba1
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d2ihta1
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1s5pa_
100.0 97 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
2d1m2ka_
100.0 40 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
3c3jwpA_
100.0 28 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein sir2 homologue;
PDBTitle: crystal structure of plasmodium falciparum sir2a (pf13_0152) in2 complex with amp
4d1j8fa_
100.0 26 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
5c2hjhB_
100.0 28 PDB header:hydrolase
Chain: B: PDB Molecule:nad-dependent histone deacetylase sir2;
PDBTitle: crystal structure of the sir2 deacetylase
6d1yc5a1
100.0 31 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
7c3glsC_
100.0 26 PDB header:hydrolase
Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3,
PDBTitle: crystal structure of human sirt3
8d2b4ya1
100.0 37 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
9d1q1aa_
100.0 27 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
10c1q14A_
100.0 27 PDB header:hydrolase
Chain: A: PDB Molecule:hst2 protein;
PDBTitle: structure and autoregulation of the yeast hst2 homolog of sir2
11c3k35D_
100.0 27 PDB header:hydrolase
Chain: D: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: crystal structure of human sirt6
12c3pkiF_
100.0 26 PDB header:hydrolase
Chain: F: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: human sirt6 crystal structure in complex with adp ribose
13d1ma3a_
100.0 35 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
14d2ji7a1
97.2 16 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
15d2djia1
97.2 15 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
16d2ez9a1
97.0 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
17d1ybha1
97.0 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
18d1ozha1
96.8 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
19d1t9ba1
96.8 15 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
20d2ihta1
96.7 9 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
21c2ivfA_
not modelled 96.4 13 PDB header:oxidoreductase
Chain: A: PDB Molecule:ethylbenzene dehydrogenase alpha-subunit;
PDBTitle: ethylbenzene dehydrogenase from aromatoleum aromaticum
22d1h0ha2
not modelled 96.4 14 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
23c2vpyE_
not modelled 96.4 14 PDB header:oxidoreductase
Chain: E: PDB Molecule:thiosulfate reductase;
PDBTitle: polysulfide reductase with bound quinone inhibitor,2 pentachlorophenol (pcp)
24c1powA_
not modelled 96.3 13 PDB header:oxidoreductase(oxygen as acceptor)
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: the refined structures of a stabilized mutant and of wild-type2 pyruvate oxidase from lactobacillus plantarum
25c3lq1A_
not modelled 96.0 6 PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-
PDBTitle: crystal structure of 2-succinyl-6-hydroxy-2,4-cyclohexadiene2 1-carboxylic acid synthase/2-oxoglutarate decarboxylase3 from listeria monocytogenes str. 4b f2365
26d1q6za1
not modelled 96.0 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
27c2djiA_
not modelled 96.0 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
28c2ji6B_
not modelled 96.0 16 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: x-ray structure of oxalyl-coa decarboxylase in complex with2 3-deaza-thdp and oxalyl-coa
29c2x7jA_
not modelled 95.9 13 PDB header:transferase
Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: structure of the menaquinone biosynthesis protein mend from2 bacillus subtilis
30c1h0hA_
not modelled 95.9 14 PDB header:dehydrogenase
Chain: A: PDB Molecule:formate dehydrogenase (large subunit);
PDBTitle: tungsten containing formate dehydrogenase from2 desulfovibrio gigas
31c1h5nC_
not modelled 95.8 10 PDB header:oxidoreductase
Chain: C: PDB Molecule:dmso reductase;
PDBTitle: dmso reductase modified by the presence of dms and air
32c1yi1A_
not modelled 95.6 9 PDB header:transferase
Chain: A: PDB Molecule:acetolactate synthase;
PDBTitle: crystal structure of arabidopsis thaliana acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, tribenuron methyl
33c2e7zA_
not modelled 95.6 12 PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus
34c2q27B_
not modelled 95.6 18 PDB header:lyase
Chain: B: PDB Molecule:oxalyl-coa decarboxylase;
PDBTitle: crystal structure of oxalyl-coa decarboxylase from escherichia coli
35c1ozhD_
not modelled 95.4 19 PDB header:lyase
Chain: D: PDB Molecule:acetolactate synthase, catabolic;
PDBTitle: the crystal structure of klebsiella pneumoniae acetolactate2 synthase with enzyme-bound cofactor and with an unusual3 intermediate.
36c2panF_
not modelled 95.4 20 PDB header:lyase
Chain: F: PDB Molecule:glyoxylate carboligase;
PDBTitle: crystal structure of e. coli glyoxylate carboligase
37c3eyaE_
not modelled 95.4 14 PDB header:oxidoreductase
Chain: E: PDB Molecule:pyruvate dehydrogenase [cytochrome];
PDBTitle: structural basis for membrane binding and catalytic2 activation of the peripheral membrane enzyme pyruvate3 oxidase from escherichia coli
38d3clsd2
not modelled 95.3 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
39c2iv2X_
not modelled 95.3 13 PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli
40d1y5ia2
not modelled 95.3 17 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
41c1efpC_
not modelled 95.2 25 PDB header:electron transport
Chain: C: PDB Molecule:protein (electron transfer flavoprotein);
PDBTitle: electron transfer flavoprotein (etf) from paracoccus2 denitrificans
42d1kqfa2
not modelled 95.2 7 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
43c1t9dB_
not modelled 95.2 17 PDB header:transferase
Chain: B: PDB Molecule:acetolactate synthase, mitochondrial;
PDBTitle: crystal structure of yeast acetohydroxyacid synthase in2 complex with a sulfonylurea herbicide, metsulfuron methyl
44d2iv2x2
not modelled 95.1 13 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
45d1vlfm2
not modelled 95.1 12 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
46c2pgnA_
not modelled 95.1 16 PDB header:hydrolase
Chain: A: PDB Molecule:cyclohexane-1,2-dione hydrolase (cdh);
PDBTitle: the crystal structure of fad and thdp-dependent cyclohexane-1,2-dione2 hydrolase in complex with cyclohexane-1,2-dione
47c1vlfQ_
not modelled 94.9 11 PDB header:oxidoreductase
Chain: Q: PDB Molecule:pyrogallol hydroxytransferase large subunit;
PDBTitle: crystal structure of pyrogallol-phloroglucinol2 transhydroxylase from pelobacter acidigallici complexed3 with inhibitor 1,2,4,5-tetrahydroxy-benzene
48d1dmra2
not modelled 94.9 10 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
49c2v45A_
not modelled 94.7 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: a new catalytic mechanism of periplasmic nitrate reductase2 from desulfovibrio desulfuricans atcc 27774 from3 crystallographic and epr data and based on detailed4 analysis of the sixth ligand
50c3shoA_
not modelled 94.7 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, rpir family;
PDBTitle: crystal structure of rpir transcription factor from sphaerobacter2 thermophilus (sugar isomerase domain)
51d1efpa2
not modelled 94.6 25 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
52d1efva2
not modelled 94.6 27 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:C-terminal domain of the electron transfer flavoprotein alpha subunit
53c1y5iA_
not modelled 94.6 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:respiratory nitrate reductase 1 alpha chain;
PDBTitle: the crystal structure of the narghi mutant nari-k86a
54c2nyaF_
not modelled 94.5 7 PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli
55d1ogya2
not modelled 94.5 9 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
56c1kqgA_
not modelled 94.3 7 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit;
PDBTitle: formate dehydrogenase n from e. coli
57d1ovma1
not modelled 94.3 26 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
58c2jlaD_
not modelled 94.3 8 PDB header:transferase
Chain: D: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene
PDBTitle: crystal structure of e.coli mend, 2-succinyl-5-enolpyruvyl-2 6-hydroxy-3-cyclohexadiene-1-carboxylate synthase - semet3 protein
59c1ogyA_
not modelled 94.2 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides
60c2khzB_
not modelled 94.2 16 PDB header:nuclear protein
Chain: B: PDB Molecule:c-myc-responsive protein rcl;
PDBTitle: solution structure of rcl
61d2jioa2
not modelled 94.2 11 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
62d1d4oa_
not modelled 94.1 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Transhydrogenase domain III (dIII)
63c1tmoA_
not modelled 94.1 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:trimethylamine n-oxide reductase;
PDBTitle: trimethylamine n-oxide reductase from shewanella massilia
64c1pt9B_
not modelled 93.8 19 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad(p) transhydrogenase, mitochondrial;
PDBTitle: crystal structure analysis of the diii component of transhydrogenase2 with a thio-nicotinamide nucleotide analogue
65c1jscA_
not modelled 93.6 17 PDB header:lyase
Chain: A: PDB Molecule:acetohydroxy-acid synthase;
PDBTitle: crystal structure of the catalytic subunit of yeast2 acetohydroxyacid synthase: a target for herbicidal3 inhibitors
66d1zpda1
not modelled 93.6 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
67c1upaC_
not modelled 93.2 7 PDB header:synthase
Chain: C: PDB Molecule:carboxyethylarginine synthase;
PDBTitle: carboxyethylarginine synthase from streptomyces2 clavuligerus (semet structure)
68d1pvda1
not modelled 93.2 17 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
69c2ag1A_
not modelled 93.0 12 PDB header:lyase
Chain: A: PDB Molecule:benzaldehyde lyase;
PDBTitle: crystal structure of benzaldehyde lyase (bal)- semet
70d1tmoa2
not modelled 92.9 11 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
71d1tk9a_
not modelled 92.0 15 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
72d1pnoa_
not modelled 91.9 17 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Transhydrogenase domain III (dIII)
73c1ovmC_
not modelled 90.9 27 PDB header:lyase
Chain: C: PDB Molecule:indole-3-pyruvate decarboxylase;
PDBTitle: crystal structure of indolepyruvate decarboxylase from2 enterobacter cloacae
74c2v3wC_
not modelled 90.4 13 PDB header:lyase
Chain: C: PDB Molecule:benzoylformate decarboxylase;
PDBTitle: crystal structure of the benzoylformate decarboxylase2 variant l461a from pseudomonas putida
75c3dnfB_
not modelled 89.7 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:4-hydroxy-3-methylbut-2-enyl diphosphate reductase;
PDBTitle: structure of (e)-4-hydroxy-3-methyl-but-2-enyl diphosphate reductase,2 the terminal enzyme of the non-mevalonate pathway
76c2x3yA_
not modelled 89.7 17 PDB header:isomerase
Chain: A: PDB Molecule:phosphoheptose isomerase;
PDBTitle: crystal structure of gmha from burkholderia pseudomallei
77d1g8ka2
not modelled 89.5 13 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
78c2vbiF_
not modelled 89.2 12 PDB header:lyase
Chain: F: PDB Molecule:pyruvate decarboxylase;
PDBTitle: holostructure of pyruvate decarboxylase from acetobacter2 pasteurianus
79d1m3sa_
not modelled 88.8 19 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
80d1vima_
not modelled 88.5 17 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
81d1x94a_
not modelled 88.4 15 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
82d1x92a_
not modelled 88.3 16 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
83c2xhzC_
not modelled 87.9 15 PDB header:isomerase
Chain: C: PDB Molecule:arabinose 5-phosphate isomerase;
PDBTitle: probing the active site of the sugar isomerase domain from e. coli2 arabinose-5-phosphate isomerase via x-ray crystallography
84c3trjC_
not modelled 87.7 20 PDB header:isomerase
Chain: C: PDB Molecule:phosphoheptose isomerase;
PDBTitle: structure of a phosphoheptose isomerase from francisella tularensis
85c1zpdA_
not modelled 87.6 14 PDB header:alcohol fermentation
Chain: A: PDB Molecule:pyruvate decarboxylase;
PDBTitle: pyruvate decarboxylase from zymomonas mobilis
86d1eu1a2
not modelled 87.5 10 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
87c3cf4G_
not modelled 86.6 15 PDB header:oxidoreductase
Chain: G: PDB Molecule:acetyl-coa decarboxylase/synthase epsilon subunit;
PDBTitle: structure of the codh component of the m. barkeri acds complex
88c1g8jC_
not modelled 86.2 11 PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis
89d1jeoa_
not modelled 85.8 16 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
90c2yvaB_
not modelled 85.6 18 PDB header:dna binding protein
Chain: B: PDB Molecule:dnaa initiator-associating protein diaa;
PDBTitle: crystal structure of escherichia coli diaa
91c2bruC_
not modelled 85.4 24 PDB header:oxidoreductase
Chain: C: PDB Molecule:nad(p) transhydrogenase subunit beta;
PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase
92c1s24A_
not modelled 85.2 23 PDB header:electron transport
Chain: A: PDB Molecule:rubredoxin 2;
PDBTitle: rubredoxin domain ii from pseudomonas oleovorans
93d1s24a_
not modelled 85.2 23 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
94c3cvjB_
not modelled 84.7 21 PDB header:isomerase
Chain: B: PDB Molecule:putative phosphoheptose isomerase;
PDBTitle: crystal structure of a putative phosphoheptose isomerase (bh3325) from2 bacillus halodurans c-125 at 2.00 a resolution
95c2lcqA_
not modelled 84.6 10 PDB header:metal binding protein
Chain: A: PDB Molecule:putative toxin vapc6;
PDBTitle: solution structure of the endonuclease nob1 from p.horikoshii
96c3ke8A_
not modelled 84.1 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:4-hydroxy-3-methylbut-2-enyl diphosphate
PDBTitle: crystal structure of isph:hmbpp-complex
97c3fxaA_
not modelled 83.8 18 PDB header:sugar binding protein
Chain: A: PDB Molecule:sis domain protein;
PDBTitle: crystal structure of a putative sugar-phosphate isomerase2 (lmof2365_0531) from listeria monocytogenes str. 4b f2365 at 1.60 a3 resolution
98c2vbgB_
not modelled 83.0 18 PDB header:lyase
Chain: B: PDB Molecule:branched-chain alpha-ketoacid decarboxylase;
PDBTitle: the complex structure of the branched-chain keto acid2 decarboxylase (kdca) from lactococcus lactis with 2r-1-3 hydroxyethyl-deazathdp
99d4rxna_
not modelled 81.8 14 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
100c3hbaA_
not modelled 81.7 23 PDB header:isomerase
Chain: A: PDB Molecule:putative phosphosugar isomerase;
PDBTitle: crystal structure of a putative phosphosugar isomerase (sden_2705)2 from shewanella denitrificans os217 at 2.00 a resolution
101c2w93A_
not modelled 81.2 20 PDB header:lyase
Chain: A: PDB Molecule:pyruvate decarboxylase isozyme 1;
PDBTitle: crystal structure of the saccharomyces cerevisiae pyruvate2 decarboxylase variant e477q in complex with the surrogate3 pyruvamide
102c1eu1A_
not modelled 81.1 10 PDB header:oxidoreductase
Chain: A: PDB Molecule:dimethyl sulfoxide reductase;
PDBTitle: the crystal structure of rhodobacter sphaeroides dimethylsulfoxide2 reductase reveals two distinct molybdenum coordination environments.
103c1nriA_
not modelled 80.6 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hi0754;
PDBTitle: crystal structure of putative phosphosugar isomerase hi0754 from2 haemophilus influenzae
104d1nria_
not modelled 80.6 21 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
105c1yuzB_
not modelled 80.2 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:nigerythrin;
PDBTitle: partially reduced state of nigerythrin
106c3a44D_
not modelled 79.5 6 PDB header:metal binding protein
Chain: D: PDB Molecule:hydrogenase nickel incorporation protein hypa;
PDBTitle: crystal structure of hypa in the dimeric form
107d1brfa_
not modelled 78.7 17 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
108d1ltla_
not modelled 78.5 18 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:DNA replication initiator (cdc21/cdc54) N-terminal domain
109c2kdxA_
not modelled 78.3 15 PDB header:metal-binding protein
Chain: A: PDB Molecule:hydrogenase/urease nickel incorporation protein
PDBTitle: solution structure of hypa protein
110c3etnD_
not modelled 75.4 19 PDB header:isomerase
Chain: D: PDB Molecule:putative phosphosugar isomerase involved in capsule
PDBTitle: crystal structure of putative phosphosugar isomerase involved in2 capsule formation (yp_209877.1) from bacteroides fragilis nctc 93433 at 1.70 a resolution
111d1qcva_
not modelled 75.2 12 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
112c2zj3A_
not modelled 75.2 21 PDB header:transferase
Chain: A: PDB Molecule:glucosamine--fructose-6-phosphate
PDBTitle: isomerase domain of human glucose:fructose-6-phosphate2 amidotransferase
113c3c2qA_
not modelled 73.7 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized conserved protein;
PDBTitle: crystal structure of conserved putative lor/sdh protein2 from methanococcus maripaludis s2
114c2puwA_
not modelled 73.6 18 PDB header:transferase
Chain: A: PDB Molecule:isomerase domain of glutamine-fructose-6-phosphate
PDBTitle: the crystal structure of isomerase domain of glucosamine-6-phosphate2 synthase from candida albicans
115c3euaD_
not modelled 73.0 18 PDB header:isomerase
Chain: D: PDB Molecule:putative fructose-aminoacid-6-phosphate deglycase;
PDBTitle: crystal structure of a putative phosphosugar isomerase (bsu32610) from2 bacillus subtilis at 1.90 a resolution
116c2a3nA_
not modelled 72.5 14 PDB header:sugar binding protein
Chain: A: PDB Molecule:putative glucosamine-fructose-6-phosphate aminotransferase;
PDBTitle: crystal structure of a putative glucosamine-fructose-6-phosphate2 aminotransferase (stm4540.s) from salmonella typhimurium lt2 at 1.353 a resolution
117d2dsxa1
not modelled 71.8 15 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
118d1x9ia_
not modelled 71.6 17 Fold:SIS domain
Superfamily:SIS domain
Family:double-SIS domain
119d1dx8a_
not modelled 70.7 16 Fold:Rubredoxin-like
Superfamily:Rubredoxin-like
Family:Rubredoxin
120c1ltlE_
not modelled 70.1 18 PDB header:replication
Chain: E: PDB Molecule:dna replication initiator (cdc21/cdc54);
PDBTitle: the dodecamer structure of mcm from archaeal m.2 thermoautotrophicum

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