Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP77783
DateThu Jan 5 12:32:48 GMT 2012
Unique Job ID3bf3afc7d5a654e6

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1tmoA_
Top template information
PDB header:oxidoreductase
Chain: A: PDB Molecule:trimethylamine n-oxide reductase;
PDBTitle: trimethylamine n-oxide reductase from shewanella massilia
Confidence and coverage
Confidence:100.0% Coverage: 89%
715 residues ( 89% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
796 residues ( 99%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MKIHTTEALMKAEISRRSLMKTSALGSLALASSAFTLPFSQMVRAAEAPVEEKAVWSSCT
Secondary structure 
SS confidence 
Disorder  ????????
????
???????????????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VNCGSRCLLRLHVKDDTVYWVESDTTGDDVYGNHQVRACLRGRSIRRRMNHPDRLKYPMK
Secondary structure 
SS confidence 
Disorder 
?
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  RVGKRGEGKFERISWDEALDTISDNLRRILKDYGNEAVHVLYGTGVDGGNITNSNVPYRL
Secondary structure 
SS confidence 
Disorder 
?
?????
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  MNSCGGFLSRYGSYSTAQISAAMSYMFGANDGNSPDDIANTKLVVMFGNNPAETRMSGGG
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  VTYYVEQARERSNARMIVIDPRYNDTAAGREDEWLPIRPGTDGALACAIAWVLITENMVD
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  QPFLDKYCVGYDEKTLPANAPRNAHYKAYILGEGPDGIAKTPEWAAKITSIPAEKIIQLA
Secondary structure 
SS confidence 
Disorder 
?
??
?
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  REIGSAKPAYICQGWGPQRHSNGEQTSRAIAMLSVLTGNVGINGGNSGVREGSWDLGVEW
Secondary structure 
SS confidence 
Disorder 
?
??
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  FPMLENPVKTQISVFTWTDAIDHGTEMTATRDGVRGKEKLDVPIKFLWCYASNTLINQHG
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  DINHTHEVLQDDSKCEMIVGIDHFMTASAKYCDILLPDLMPTEQEDLISHESAGNMGYVI
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  LAQPATSAKFERKPIYWMLSEVAKRLGPDVYQTFTEGRSQHEWIKYLHAKTKERNPEMPD
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  YEEMKTTGIFKKKCPEEHYVAFRAFREDPQANPLKTPSGKIEIYSERLAKIADTWELKKD
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  EIIHPLPAYTPGFDGWDDPLRKTYPLQLTGFHYKARTHSSYGNIDVLQQACPQEVWINPI
Secondary structure 
SS confidence 
Disorder 
??
??
Disorder confidence 
 
   .........730.........740.........750.........760.........770.........780
Sequence  DAQARGIRHGDTVRVFNNNGEMLIAAKVTPRILPGVTAIGQGAWLKADMFGDRVDHGGSI
Secondary structure 
SS confidence 
Disorder 
?????
Disorder confidence 
 
   .........790.........800.......
Sequence  NILTSHRPSPLAKGNPSHSNLVQIEKV
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 1tmo chain A

3D model

Region: 50 - 807
Aligned: 715
Modelled: 737
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: A: PDB Molecule:trimethylamine n-oxide reductase;
PDBTitle: trimethylamine n-oxide reductase from shewanella massilia

Phyre2

PDB 1y5i chain A

3D model

Region: 52 - 807
Aligned: 744
Modelled: 753
Confidence: 100.0%
Identity: 27%
PDB header:oxidoreductase
Chain: A: PDB Molecule:respiratory nitrate reductase 1 alpha chain;
PDBTitle: the crystal structure of the narghi mutant nari-k86a

Phyre2

PDB 1h5n chain C

3D model

Region: 57 - 807
Aligned: 712
Modelled: 737
Confidence: 100.0%
Identity: 28%
PDB header:oxidoreductase
Chain: C: PDB Molecule:dmso reductase;
PDBTitle: dmso reductase modified by the presence of dms and air

Phyre2

PDB 1kqg chain A

3D model

Region: 48 - 806
Aligned: 731
Modelled: 758
Confidence: 100.0%
Identity: 23%
PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit;
PDBTitle: formate dehydrogenase n from e. coli

Phyre2

PDB 2e7z chain A

3D model

Region: 55 - 806
Aligned: 685
Modelled: 720
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus

Phyre2

PDB 1h0h chain A

3D model

Region: 43 - 806
Aligned: 744
Modelled: 760
Confidence: 100.0%
Identity: 21%
PDB header:dehydrogenase
Chain: A: PDB Molecule:formate dehydrogenase (large subunit);
PDBTitle: tungsten containing formate dehydrogenase from2 desulfovibrio gigas

Phyre2

PDB 1eu1 chain A

3D model

Region: 57 - 806
Aligned: 713
Modelled: 733
Confidence: 100.0%
Identity: 28%
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.

Phyre2

PDB 1vlf chain Q

3D model

Region: 53 - 807
Aligned: 730
Modelled: 741
Confidence: 100.0%
Identity: 25%
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

Phyre2

PDB 2vpy chain E

3D model

Region: 45 - 807
Aligned: 694
Modelled: 727
Confidence: 100.0%
Identity: 29%
PDB header:oxidoreductase
Chain: E: PDB Molecule:thiosulfate reductase;
PDBTitle: polysulfide reductase with bound quinone inhibitor,2 pentachlorophenol (pcp)

Phyre2

PDB 2ivf chain A

3D model

Region: 52 - 806
Aligned: 714
Modelled: 744
Confidence: 100.0%
Identity: 23%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ethylbenzene dehydrogenase alpha-subunit;
PDBTitle: ethylbenzene dehydrogenase from aromatoleum aromaticum

Phyre2

PDB 2nya chain F

3D model

Region: 50 - 806
Aligned: 702
Modelled: 702
Confidence: 100.0%
Identity: 22%
PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli

Phyre2

PDB 1ogy chain A

3D model

Region: 53 - 805
Aligned: 706
Modelled: 706
Confidence: 100.0%
Identity: 21%
PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides

Phyre2

PDB 2v45 chain A

3D model

Region: 48 - 806
Aligned: 698
Modelled: 743
Confidence: 100.0%
Identity: 22%
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

Phyre2

PDB 2iv2 chain X

3D model

Region: 53 - 806
Aligned: 672
Modelled: 698
Confidence: 100.0%
Identity: 24%
PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli

Phyre2

PDB 1g8j chain C

3D model

Region: 49 - 807
Aligned: 686
Modelled: 713
Confidence: 100.0%
Identity: 18%
PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis

Phyre2

PDB 1tmo chain A domain 2

3D model

Region: 50 - 672
Aligned: 581
Modelled: 609
Confidence: 100.0%
Identity: 24%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 1dmr chain A domain 2

3D model

Region: 55 - 673
Aligned: 583
Modelled: 602
Confidence: 100.0%
Identity: 25%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 1y5i chain A domain 2

3D model

Region: 52 - 675
Aligned: 602
Modelled: 621
Confidence: 100.0%
Identity: 28%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 2jio chain A domain 2

3D model

Region: 52 - 649
Aligned: 563
Modelled: 586
Confidence: 100.0%
Identity: 22%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 1kqf chain A domain 2

3D model

Region: 48 - 740
Aligned: 642
Modelled: 660
Confidence: 100.0%
Identity: 21%
Fold: Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily: Formate dehydrogenase/DMSO reductase, domains 1-3
Family: Formate dehydrogenase/DMSO reductase, domains 1-3

Phyre2

PDB 2pq4 chain B

3D model

Region: 12 - 43
Aligned: 32
Modelled: 32
Confidence: 92.9%
Identity: 31%
PDB header:chaperone/oxidoreductase
Chain: B: PDB Molecule:periplasmic nitrate reductase precursor;
PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide

Phyre2

PDB 2e76 chain D

3D model

Region: 13 - 35
Aligned: 23
Modelled: 23
Confidence: 91.0%
Identity: 22%
PDB header:photosynthesis
Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit;
PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus

Phyre2

PDB 2fyu chain E

3D model

Region: 6 - 34
Aligned: 29
Modelled: 29
Confidence: 80.6%
Identity: 10%
PDB header:oxidoreductase
Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit,
PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor

Phyre2
1
c1tmoA_
2
c1y5iA_
3
c1h5nC_
4
c1kqgA_
5
c2e7zA_
6
c1h0hA_
7
c1eu1A_
8
c1vlfQ_
9
c2vpyE_
10
c2ivfA_
11
c2nyaF_
12
c1ogyA_
13
c2v45A_
14
c2iv2X_
15
c1g8jC_
16
d1tmoa2
17
d1dmra2
18
d1y5ia2
19
d2jioa2
20
d1kqfa2
21
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c2pq4B_
55
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c2e76D_
64
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c2fyuE_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1tmoA_
100.0 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:trimethylamine n-oxide reductase;
PDBTitle: trimethylamine n-oxide reductase from shewanella massilia
2c1y5iA_
100.0 27 PDB header:oxidoreductase
Chain: A: PDB Molecule:respiratory nitrate reductase 1 alpha chain;
PDBTitle: the crystal structure of the narghi mutant nari-k86a
3c1h5nC_
100.0 28 PDB header:oxidoreductase
Chain: C: PDB Molecule:dmso reductase;
PDBTitle: dmso reductase modified by the presence of dms and air
4c1kqgA_
100.0 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:formate dehydrogenase, nitrate-inducible, major subunit;
PDBTitle: formate dehydrogenase n from e. coli
5c2e7zA_
100.0 25 PDB header:lyase
Chain: A: PDB Molecule:acetylene hydratase ahy;
PDBTitle: acetylene hydratase from pelobacter acetylenicus
6c1h0hA_
100.0 21 PDB header:dehydrogenase
Chain: A: PDB Molecule:formate dehydrogenase (large subunit);
PDBTitle: tungsten containing formate dehydrogenase from2 desulfovibrio gigas
7c1eu1A_
100.0 28 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.
8c1vlfQ_
100.0 25 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
9c2vpyE_
100.0 29 PDB header:oxidoreductase
Chain: E: PDB Molecule:thiosulfate reductase;
PDBTitle: polysulfide reductase with bound quinone inhibitor,2 pentachlorophenol (pcp)
10c2ivfA_
100.0 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:ethylbenzene dehydrogenase alpha-subunit;
PDBTitle: ethylbenzene dehydrogenase from aromatoleum aromaticum
11c2nyaF_
100.0 22 PDB header:oxidoreductase
Chain: F: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the periplasmic nitrate reductase2 (nap) from escherichia coli
12c1ogyA_
100.0 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:periplasmic nitrate reductase;
PDBTitle: crystal structure of the heterodimeric nitrate reductase2 from rhodobacter sphaeroides
13c2v45A_
100.0 22 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
14c2iv2X_
100.0 24 PDB header:oxidoreductase
Chain: X: PDB Molecule:formate dehydrogenase h;
PDBTitle: reinterpretation of reduced form of formate dehydrogenase h2 from e. coli
15c1g8jC_
100.0 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:arsenite oxidase;
PDBTitle: crystal structure analysis of arsenite oxidase from2 alcaligenes faecalis
16d1tmoa2
100.0 24 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
17d1dmra2
100.0 25 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
18d1y5ia2
100.0 28 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
19d2jioa2
100.0 22 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
20d1kqfa2
100.0 21 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
21d1vlfm2
not modelled 100.0 23 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
22d1eu1a2
not modelled 100.0 28 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
23d1h0ha2
not modelled 100.0 22 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
24d2iv2x2
not modelled 100.0 25 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
25d1ogya2
not modelled 100.0 21 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
26d1g8ka2
not modelled 100.0 18 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
27c2fugC_
not modelled 100.0 19 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh-quinone oxidoreductase chain 3;
PDBTitle: crystal structure of the hydrophilic domain of respiratory complex i2 from thermus thermophilus
28d2fug32
not modelled 100.0 16 Fold:Formate dehydrogenase/DMSO reductase, domains 1-3
Superfamily:Formate dehydrogenase/DMSO reductase, domains 1-3
Family:Formate dehydrogenase/DMSO reductase, domains 1-3
29d1kqfa1
not modelled 100.0 25 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
30d1tmoa1
not modelled 100.0 32 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
31d1dmra1
not modelled 100.0 33 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
32d1eu1a1
not modelled 100.0 36 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
33d1vlfm1
not modelled 100.0 34 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
34d1h0ha1
not modelled 100.0 21 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
35d2jioa1
not modelled 99.9 29 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
36d1g8ka1
not modelled 99.9 20 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
37d1ogya1
not modelled 99.9 25 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
38d1y5ia1
not modelled 99.9 24 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
39d2iv2x1
not modelled 99.9 25 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
40c2ki8A_
not modelled 99.8 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:tungsten formylmethanofuran dehydrogenase,
PDBTitle: solution nmr structure of tungsten formylmethanofuran2 dehydrogenase subunit d from archaeoglobus fulgidus,3 northeast structural genomics consortium target att7
41d2fug31
not modelled 97.0 19 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Formate dehydrogenase/DMSO reductase, C-terminal domain
42c2pjhB_
not modelled 96.4 13 PDB header:transport protein
Chain: B: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: strctural model of the p97 n domain- npl4 ubd complex
43d1ozha1
not modelled 96.0 19 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
44d1q6za1
not modelled 95.9 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
45d2ihta1
not modelled 95.9 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
46d2ez9a1
not modelled 95.8 15 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
47d2ji7a1
not modelled 95.6 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
48d1ybha1
not modelled 95.6 15 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
49d1e32a1
not modelled 95.5 13 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
50c1cz5A_
not modelled 94.7 13 PDB header:hydrolase
Chain: A: PDB Molecule:vcp-like atpase;
PDBTitle: nmr structure of vat-n: the n-terminal domain of vat (vcp-2 like atpase of thermoplasma)
51d2djia1
not modelled 94.6 14 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
52d1cz5a1
not modelled 94.1 16 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
53c1s3sA_
not modelled 93.0 13 PDB header:protein binding
Chain: A: PDB Molecule:transitional endoplasmic reticulum atpase (ter
PDBTitle: crystal structure of aaa atpase p97/vcp nd1 in complex with2 p47 c
54c2pq4B_
92.9 31 PDB header:chaperone/oxidoreductase
Chain: B: PDB Molecule:periplasmic nitrate reductase precursor;
PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide
55c3hu2C_
not modelled 92.6 13 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97 n-d1 r86a mutant in complex with atpgs
56d1t9ba1
not modelled 92.5 8 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
57c3k35D_
not modelled 92.4 17 PDB header:hydrolase
Chain: D: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: crystal structure of human sirt6
58d1ovma1
not modelled 92.2 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
59c3knzA_
not modelled 91.6 12 PDB header:sugar binding protein
Chain: A: PDB Molecule:putative sugar binding protein;
PDBTitle: crystal structure of putative sugar binding protein (np_459565.1) from2 salmonella typhimurium lt2 at 2.50 a resolution
60c3pkiF_
not modelled 91.5 20 PDB header:hydrolase
Chain: F: PDB Molecule:nad-dependent deacetylase sirtuin-6;
PDBTitle: human sirt6 crystal structure in complex with adp ribose
61d1x94a_
not modelled 91.3 13 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
62c3jwpA_
not modelled 91.1 10 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
63c2e76D_
91.0 22 PDB header:photosynthesis
Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit;
PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus
64c2x3yA_
not modelled 90.9 6 PDB header:isomerase
Chain: A: PDB Molecule:phosphoheptose isomerase;
PDBTitle: crystal structure of gmha from burkholderia pseudomallei
65c3fxaA_
not modelled 90.3 16 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
66d1tk9a_
not modelled 90.1 10 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
67d1zpda1
not modelled 89.9 12 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Pyruvate oxidase and decarboxylase, middle domain
68c3cf1C_
not modelled 89.5 11 PDB header:transport protein
Chain: C: PDB Molecule:transitional endoplasmic reticulum atpase;
PDBTitle: structure of p97/vcp in complex with adp/adp.alfx
69c3g68A_
not modelled 89.5 11 PDB header:isomerase
Chain: A: PDB Molecule:putative phosphosugar isomerase;
PDBTitle: crystal structure of a putative phosphosugar isomerase (cd3275) from2 clostridium difficile 630 at 1.80 a resolution
70d1ma3a_
not modelled 88.6 10 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
71c2dwcB_
not modelled 87.8 11 PDB header:transferase
Chain: B: PDB Molecule:433aa long hypothetical phosphoribosylglycinamide formyl
PDBTitle: crystal structure of probable phosphoribosylglycinamide formyl2 transferase from pyrococcus horikoshii ot3 complexed with adp
72d2b4ya1
not modelled 87.7 7 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
73c1p84E_
not modelled 87.6 16 PDB header:oxidoreductase
Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur
PDBTitle: hdbt inhibited yeast cytochrome bc1 complex
74c2yvaB_
not modelled 87.3 8 PDB header:dna binding protein
Chain: B: PDB Molecule:dnaa initiator-associating protein diaa;
PDBTitle: crystal structure of escherichia coli diaa
75c3etnD_
not modelled 87.0 13 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
76c2a3nA_
not modelled 84.8 9 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
77c2fynO_
not modelled 84.3 30 PDB header:oxidoreductase
Chain: O: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur
PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex
78d1ylea1
not modelled 83.7 26 Fold:Acyl-CoA N-acyltransferases (Nat)
Superfamily:Acyl-CoA N-acyltransferases (Nat)
Family:AstA-like
79d1nria_
not modelled 83.2 15 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
80c1nriA_
not modelled 83.2 15 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein hi0754;
PDBTitle: crystal structure of putative phosphosugar isomerase hi0754 from2 haemophilus influenzae
81d1x92a_
not modelled 83.2 13 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
82c3euaD_
not modelled 82.8 13 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
83d1kjqa2
not modelled 82.6 17 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
84c1wlfA_
not modelled 82.1 29 PDB header:protein transport
Chain: A: PDB Molecule:peroxisome biogenesis factor 1;
PDBTitle: structure of the n-terminal domain of pex1 aaa-atpase:2 characterization of a putative adaptor-binding domain
85d1yc5a1
not modelled 80.9 7 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
86c2fyuE_
80.6 10 PDB header:oxidoreductase
Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit,
PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor
87c2amlB_
not modelled 79.9 13 PDB header:transferase
Chain: B: PDB Molecule:sis domain protein;
PDBTitle: crystal structure of lmo0035 protein (46906266) from listeria2 monocytogenes 4b f2365 at 1.50 a resolution
88c2ji6B_
not modelled 79.4 13 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
89d1m2ka_
not modelled 77.5 13 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
90d1moqa_
not modelled 77.5 23 Fold:SIS domain
Superfamily:SIS domain
Family:double-SIS domain
91c2x7jA_
not modelled 76.2 15 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
92d1wlfa2
not modelled 75.2 28 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
93d1qcsa1
not modelled 74.6 19 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
94d1vima_
not modelled 74.0 10 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain
95d1s5pa_
not modelled 73.3 7 Fold:DHS-like NAD/FAD-binding domain
Superfamily:DHS-like NAD/FAD-binding domain
Family:Sir2 family of transcriptional regulators
96c1kjjA_
not modelled 73.2 17 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
97d1cr5a1
not modelled 71.1 13 Fold:Double psi beta-barrel
Superfamily:ADC-like
Family:Cdc48 N-terminal domain-like
98c3q2oB_
not modelled 70.2 18 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
99c1qdnA_
not modelled 69.8 16 PDB header:fusion protein
Chain: A: PDB Molecule:protein (n-ethylmaleimide sensitive fusion
PDBTitle: amino terminal domain of the n-ethylmaleimide sensitive2 fusion protein (nsf)
100c2l66B_
not modelled 68.9 23 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, abrb family;
PDBTitle: the dna-recognition fold of sso7c4 suggests a new member of spovt-abrb2 superfamily from archaea.
101c3fkjA_
not modelled 66.5 15 PDB header:isomerase
Chain: A: PDB Molecule:putative phosphosugar isomerases;
PDBTitle: crystal structure of a putative phosphosugar isomerase (stm_0572) from2 salmonella typhimurium lt2 at 2.12 a resolution
102c3m7aA_
not modelled 65.3 40 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of saro_0823 (yp_496102.1) a protein of2 unknown function from novosphingobium aromaticivorans dsm3 12444 at 1.22 a resolution
103c3iwfA_
not modelled 64.7 17 PDB header:transcription regulator
Chain: A: PDB Molecule:transcription regulator rpir family;
PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a
104c1powA_
not modelled 60.8 16 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
105c2ev2B_
not modelled 60.1 17 PDB header:lyase
Chain: B: PDB Molecule:hypothetical protein rv1264/mt1302;
PDBTitle: structure of rv1264n, the regulatory domain of the mycobacterial2 adenylyl cylcase rv1264, at ph 8.5
106c3glsC_
not modelled 58.6 13 PDB header:hydrolase
Chain: C: PDB Molecule:nad-dependent deacetylase sirtuin-3,
PDBTitle: crystal structure of human sirt3
107d1mvfd_
not modelled 58.2 26 Fold:Double-split beta-barrel
Superfamily:AbrB/MazE/MraZ-like
Family:Kis/PemI addiction antidote
108c3cvjB_
not modelled 57.6 10 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
109c3pjyB_
not modelled 55.8 19 PDB header:transcription regulator
Chain: B: PDB Molecule:hypothetical signal peptide protein;
PDBTitle: crystal structure of a putative transcription regulator (r01717) from2 sinorhizobium meliloti 1021 at 1.55 a resolution
110d2vbua1
not modelled 54.9 14 Fold:Reductase/isomerase/elongation factor common domain
Superfamily:Riboflavin kinase-like
Family:CTP-dependent riboflavin kinase-like
111c3orqA_
not modelled 54.1 14 PDB header:ligase,biosynthetic protein
Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp
112c3shoA_
not modelled 53.2 13 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)
113c3uvzB_
not modelled 52.8 21 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria
114c2djiA_
not modelled 52.8 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate oxidase;
PDBTitle: crystal structure of pyruvate oxidase from aerococcus2 viridans containing fad
115c3fj1A_
not modelled 52.6 11 PDB header:isomerase
Chain: A: PDB Molecule:putative phosphosugar isomerase;
PDBTitle: crystal structure of putative phosphosugar isomerase (yp_167080.1)2 from silicibacter pomeroyi dss-3 at 1.75 a resolution
116d1b25a1
not modelled 51.9 14 Fold:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Superfamily:Aldehyde ferredoxin oxidoreductase, C-terminal domains
Family:Aldehyde ferredoxin oxidoreductase, C-terminal domains
117c3trjC_
not modelled 51.1 10 PDB header:isomerase
Chain: C: PDB Molecule:phosphoheptose isomerase;
PDBTitle: structure of a phosphoheptose isomerase from francisella tularensis
118c1cr5B_
not modelled 50.5 13 PDB header:endocytosis/exocytosis
Chain: B: PDB Molecule:sec18p (residues 22 - 210);
PDBTitle: n-terminal domain of sec18p
119c2decA_
not modelled 50.4 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:325aa long hypothetical protein;
PDBTitle: crystal structure of the ph0510 protein from pyrococcus horikoshii ot3
120d1jeoa_
not modelled 49.7 16 Fold:SIS domain
Superfamily:SIS domain
Family:mono-SIS domain

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
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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