Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AEI4
DateThu Jan 5 11:23:25 GMT 2012
Unique Job ID07cda6869b3ba6b3

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2qgqF_
Top template information
PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:protein tm_1862;
PDBTitle: crystal structure of tm_1862 from thermotoga maritima.2 northeast structural genomics consortium target vr77
Confidence and coverage
Confidence:100.0% Coverage: 60%
265 residues ( 60% 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.
377 residues ( 85%) 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  MSKVTPQPKIGFVSLGCPKNLVDSERILTELRTEGYDVVPSYDDADMVIVNTCGFIDSAV
Secondary structure 
SS confidence 
Disorder  ???????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  QESLEAIGEALNENGKVIVTGCLGAKEDQIREVHPKVLEITGPHSYEQVLEHVHHYVPKP
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  KHNPFLSLVPEQGVKLTPRHYAYLKISEGCNHRCTFCIIPSMRGDLVSRPIGEVLSEAKR
Secondary structure 
SS confidence 
Disorder  ??
???
??
??
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  LVDAGVKEILVISQDTSAYGVDVKHRTGFHNGEPVKTSMVSLCEQLSKLGIWTRLHYVYP
Secondary structure 
SS confidence 
Disorder 
???????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  YPHVDDVIPLMAEGKILPYLDIPLQHASPRILKLMKRPGSVDRQLARIKQWREICPELTL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  RSTFIVGFPGETEEDFQMLLDFLKEARLDRVGCFKYSPVEGADANALPDQVPEEVKEERW
Secondary structure 
SS confidence 
Disorder 
????
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  NRFMQLQQQISAERLQEKVGREILVIIDEVDEEGAIGRSMADAPEIDGAVYLNGETNVKP
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........430.........440.
Sequence  GDILRVKVEHADEYDLWGSRV
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 2qgq chain F

3D model

Region: 154 - 441
Aligned: 265
Modelled: 278
Confidence: 100.0%
Identity: 37%
PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:protein tm_1862;
PDBTitle: crystal structure of tm_1862 from thermotoga maritima.2 northeast structural genomics consortium target vr77

Phyre2

PDB 3cix chain A

3D model

Region: 141 - 364
Aligned: 201
Modelled: 209
Confidence: 100.0%
Identity: 20%
PDB header:adomet binding protein
Chain: A: PDB Molecule:fefe-hydrogenase maturase;
PDBTitle: x-ray structure of the [fefe]-hydrogenase maturase hyde from2 thermotoga maritima in complex with thiocyanate

Phyre2

PDB 1olt chain A

3D model

Region: 143 - 373
Aligned: 212
Modelled: 216
Confidence: 100.0%
Identity: 18%
Fold: TIM beta/alpha-barrel
Superfamily: Radical SAM enzymes
Family: Oxygen-independent coproporphyrinogen III oxidase HemN

Phyre2

PDB 3t7v chain A

3D model

Region: 141 - 357
Aligned: 198
Modelled: 204
Confidence: 100.0%
Identity: 15%
PDB header:transferase
Chain: A: PDB Molecule:methylornithine synthase pylb;
PDBTitle: crystal structure of methylornithine synthase (pylb)

Phyre2

PDB 1r30 chain A

3D model

Region: 141 - 366
Aligned: 204
Modelled: 213
Confidence: 99.9%
Identity: 18%
Fold: TIM beta/alpha-barrel
Superfamily: Radical SAM enzymes
Family: Biotin synthase

Phyre2

PDB 1r30 chain A

3D model

Region: 141 - 366
Aligned: 204
Modelled: 213
Confidence: 99.9%
Identity: 18%
PDB header:transferase
Chain: A: PDB Molecule:biotin synthase;
PDBTitle: the crystal structure of biotin synthase, an s-2 adenosylmethionine-dependent radical enzyme

Phyre2

PDB 3rfa chain A

3D model

Region: 134 - 365
Aligned: 209
Modelled: 217
Confidence: 99.8%
Identity: 15%
PDB header:oxidoreductase
Chain: A: PDB Molecule:ribosomal rna large subunit methyltransferase n;
PDBTitle: x-ray structure of rlmn from escherichia coli in complex with s-2 adenosylmethionine

Phyre2

PDB 1tv8 chain A

3D model

Region: 141 - 363
Aligned: 201
Modelled: 206
Confidence: 99.7%
Identity: 15%
Fold: TIM beta/alpha-barrel
Superfamily: Radical SAM enzymes
Family: MoCo biosynthesis proteins

Phyre2

PDB 2yx0 chain A

3D model

Region: 144 - 365
Aligned: 212
Modelled: 221
Confidence: 99.7%
Identity: 15%
PDB header:metal binding protein
Chain: A: PDB Molecule:radical sam enzyme;
PDBTitle: crystal structure of p. horikoshii tyw1

Phyre2

PDB 3c8f chain A

3D model

Region: 138 - 370
Aligned: 212
Modelled: 215
Confidence: 99.5%
Identity: 16%
PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate formate-lyase 1-activating enzyme;
PDBTitle: 4fe-4s-pyruvate formate-lyase activating enzyme with2 partially disordered adomet

Phyre2

PDB 2a5h chain C

3D model

Region: 127 - 348
Aligned: 195
Modelled: 207
Confidence: 99.3%
Identity: 14%
PDB header:isomerase
Chain: C: PDB Molecule:l-lysine 2,3-aminomutase;
PDBTitle: 2.1 angstrom x-ray crystal structure of lysine-2,3-aminomutase from2 clostridium subterminale sb4, with michaelis analog (l-alpha-lysine3 external aldimine form of pyridoxal-5'-phosphate).

Phyre2

PDB 7req chain A domain 2

3D model

Region: 3 - 117
Aligned: 114
Modelled: 115
Confidence: 97.6%
Identity: 18%
Fold: Flavodoxin-like
Superfamily: Cobalamin (vitamin B12)-binding domain
Family: Cobalamin (vitamin B12)-binding domain

Phyre2

PDB 1ccw chain A

3D model

Region: 5 - 120
Aligned: 115
Modelled: 116
Confidence: 97.2%
Identity: 16%
Fold: Flavodoxin-like
Superfamily: Cobalamin (vitamin B12)-binding domain
Family: Cobalamin (vitamin B12)-binding domain

Phyre2

PDB 2z2u chain A

3D model

Region: 150 - 340
Aligned: 161
Modelled: 175
Confidence: 96.9%
Identity: 16%
PDB header:metal binding protein
Chain: A: PDB Molecule:upf0026 protein mj0257;
PDBTitle: crystal structure of archaeal tyw1

Phyre2

PDB 1y80 chain A

3D model

Region: 7 - 117
Aligned: 106
Modelled: 111
Confidence: 96.7%
Identity: 16%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:predicted cobalamin binding protein;
PDBTitle: structure of a corrinoid (factor iiim)-binding protein from2 moorella thermoacetica

Phyre2

PDB 3can chain A

3D model

Region: 189 - 365
Aligned: 147
Modelled: 161
Confidence: 96.6%
Identity: 14%
PDB header:lyase activator
Chain: A: PDB Molecule:pyruvate-formate lyase-activating enzyme;
PDBTitle: crystal structure of a domain of pyruvate-formate lyase-activating2 enzyme from bacteroides vulgatus atcc 8482

Phyre2

PDB 1e1c chain A

3D model

Region: 3 - 117
Aligned: 114
Modelled: 115
Confidence: 96.6%
Identity: 19%
PDB header:isomerase
Chain: A: PDB Molecule:methylmalonyl-coa mutase alpha chain;
PDBTitle: methylmalonyl-coa mutase h244a mutant

Phyre2

PDB 2yxb chain A

3D model

Region: 6 - 119
Aligned: 113
Modelled: 113
Confidence: 96.5%
Identity: 14%
PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix

Phyre2

PDB 3bul chain A domain 2

3D model

Region: 2 - 121
Aligned: 119
Modelled: 120
Confidence: 96.4%
Identity: 8%
Fold: Flavodoxin-like
Superfamily: Cobalamin (vitamin B12)-binding domain
Family: Cobalamin (vitamin B12)-binding domain

Phyre2

PDB 1fmf chain A

3D model

Region: 5 - 117
Aligned: 113
Modelled: 113
Confidence: 96.1%
Identity: 19%
Fold: Flavodoxin-like
Superfamily: Cobalamin (vitamin B12)-binding domain
Family: Cobalamin (vitamin B12)-binding domain

Phyre2

PDB 2c3y chain A

3D model

Region: 42 - 159
Aligned: 117
Modelled: 117
Confidence: 55.1%
Identity: 17%
PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate-ferredoxin oxidoreductase;
PDBTitle: crystal structure of the radical form of2 pyruvate:ferredoxin oxidoreductase from desulfovibrio3 africanus

Phyre2
1
c2qgqF_
2
c3cixA_
3
d1olta_
4
c3t7vA_
5
d1r30a_
6
c1r30A_
7
c3rfaA_
8
d1tv8a_
9
c2yx0A_
10
c3c8fA_
11
c2a5hC_
12
d7reqa2
13
d1ccwa_
14
c2z2uA_
15
c1y80A_
16
c3canA_
17
c1e1cA_
18
c2yxbA_
19
d3bula2
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d1fmfa_
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c2c3yA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2qgqF_
100.0 37 PDB header:structural genomics, unknown function
Chain: F: PDB Molecule:protein tm_1862;
PDBTitle: crystal structure of tm_1862 from thermotoga maritima.2 northeast structural genomics consortium target vr77
2c3cixA_
100.0 20 PDB header:adomet binding protein
Chain: A: PDB Molecule:fefe-hydrogenase maturase;
PDBTitle: x-ray structure of the [fefe]-hydrogenase maturase hyde from2 thermotoga maritima in complex with thiocyanate
3d1olta_
100.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Radical SAM enzymes
Family:Oxygen-independent coproporphyrinogen III oxidase HemN
4c3t7vA_
100.0 15 PDB header:transferase
Chain: A: PDB Molecule:methylornithine synthase pylb;
PDBTitle: crystal structure of methylornithine synthase (pylb)
5d1r30a_
99.9 18 Fold:TIM beta/alpha-barrel
Superfamily:Radical SAM enzymes
Family:Biotin synthase
6c1r30A_
99.9 18 PDB header:transferase
Chain: A: PDB Molecule:biotin synthase;
PDBTitle: the crystal structure of biotin synthase, an s-2 adenosylmethionine-dependent radical enzyme
7c3rfaA_
99.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:ribosomal rna large subunit methyltransferase n;
PDBTitle: x-ray structure of rlmn from escherichia coli in complex with s-2 adenosylmethionine
8d1tv8a_
99.7 15 Fold:TIM beta/alpha-barrel
Superfamily:Radical SAM enzymes
Family:MoCo biosynthesis proteins
9c2yx0A_
99.7 15 PDB header:metal binding protein
Chain: A: PDB Molecule:radical sam enzyme;
PDBTitle: crystal structure of p. horikoshii tyw1
10c3c8fA_
99.5 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate formate-lyase 1-activating enzyme;
PDBTitle: 4fe-4s-pyruvate formate-lyase activating enzyme with2 partially disordered adomet
11c2a5hC_
99.3 14 PDB header:isomerase
Chain: C: PDB Molecule:l-lysine 2,3-aminomutase;
PDBTitle: 2.1 angstrom x-ray crystal structure of lysine-2,3-aminomutase from2 clostridium subterminale sb4, with michaelis analog (l-alpha-lysine3 external aldimine form of pyridoxal-5'-phosphate).
12d7reqa2
97.6 18 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
13d1ccwa_
97.2 16 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
14c2z2uA_
96.9 16 PDB header:metal binding protein
Chain: A: PDB Molecule:upf0026 protein mj0257;
PDBTitle: crystal structure of archaeal tyw1
15c1y80A_
96.7 16 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:predicted cobalamin binding protein;
PDBTitle: structure of a corrinoid (factor iiim)-binding protein from2 moorella thermoacetica
16c3canA_
96.6 14 PDB header:lyase activator
Chain: A: PDB Molecule:pyruvate-formate lyase-activating enzyme;
PDBTitle: crystal structure of a domain of pyruvate-formate lyase-activating2 enzyme from bacteroides vulgatus atcc 8482
17c1e1cA_
96.6 19 PDB header:isomerase
Chain: A: PDB Molecule:methylmalonyl-coa mutase alpha chain;
PDBTitle: methylmalonyl-coa mutase h244a mutant
18c2yxbA_
96.5 14 PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
19d3bula2
96.4 8 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
20d1fmfa_
96.1 19 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
21c2i2xD_
not modelled 95.9 12 PDB header:transferase
Chain: D: PDB Molecule:methyltransferase 1;
PDBTitle: crystal structure of methanol:cobalamin methyltransferase complex2 mtabc from methanosarcina barkeri
22c3ivuB_
not modelled 95.3 17 PDB header:transferase
Chain: B: PDB Molecule:homocitrate synthase, mitochondrial;
PDBTitle: homocitrate synthase lys4 bound to 2-og
23c3ezxA_
not modelled 94.6 13 PDB header:transferase
Chain: A: PDB Molecule:monomethylamine corrinoid protein 1;
PDBTitle: structure of methanosarcina barkeri monomethylamine2 corrinoid protein
24c3bicA_
not modelled 94.3 16 PDB header:isomerase
Chain: A: PDB Molecule:methylmalonyl-coa mutase, mitochondrial precursor;
PDBTitle: crystal structure of human methylmalonyl-coa mutase
25c1bmtB_
not modelled 94.0 8 PDB header:methyltransferase
Chain: B: PDB Molecule:methionine synthase;
PDBTitle: how a protein binds b12: a 3.o angstrom x-ray structure of2 the b12-binding domains of methionine synthase
26c6reqB_
not modelled 92.7 10 PDB header:isomerase
Chain: B: PDB Molecule:protein (methylmalonyl-coa mutase);
PDBTitle: methylmalonyl-coa mutase, 3-carboxypropyl-coa inhibitor complex
27d1xrsb1
not modelled 92.1 17 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
28d1yvca1
not modelled 91.6 26 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:TRAM domain
29d1yeza1
not modelled 91.4 30 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:TRAM domain
30c1xrsB_
not modelled 91.3 15 PDB header:isomerase
Chain: B: PDB Molecule:d-lysine 5,6-aminomutase beta subunit;
PDBTitle: crystal structure of lysine 5,6-aminomutase in complex with plp,2 cobalamin, and 5'-deoxyadenosine
31c2ftpA_
not modelled 90.3 12 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of hydroxymethylglutaryl-coa lyase from pseudomonas2 aeruginosa
32c3npgD_
not modelled 89.9 16 PDB header:unknown function
Chain: D: PDB Molecule:uncharacterized duf364 family protein;
PDBTitle: crystal structure of a protein with unknown function from duf3642 family (ph1506) from pyrococcus horikoshii at 2.70 a resolution
33d1ad1a_
not modelled 89.7 15 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
34c3ewbX_
not modelled 89.6 10 PDB header:transferase
Chain: X: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of n-terminal domain of putative 2-2 isopropylmalate synthase from listeria monocytogenes
35c3r0jA_
not modelled 89.5 17 PDB header:dna binding protein
Chain: A: PDB Molecule:possible two component system response transcriptional
PDBTitle: structure of phop from mycobacterium tuberculosis
36c3bleA_
not modelled 89.3 12 PDB header:transferase
Chain: A: PDB Molecule:citramalate synthase from leptospira interrogans;
PDBTitle: crystal structure of the catalytic domain of licms in2 complexed with malonate
37c2bdqA_
not modelled 89.3 16 PDB header:metal transport
Chain: A: PDB Molecule:copper homeostasis protein cutc;
PDBTitle: crystal structure of the putative copper homeostasis2 protein cutc from streptococcus agalactiae, northeast3 strucural genomics target sar15.
38c2cw6B_
not modelled 88.3 11 PDB header:lyase
Chain: B: PDB Molecule:hydroxymethylglutaryl-coa lyase, mitochondrial;
PDBTitle: crystal structure of human hmg-coa lyase: insights into2 catalysis and the molecular basis for3 hydroxymethylglutaric aciduria
39d1ajza_
not modelled 88.1 18 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
40c1k98A_
not modelled 87.7 10 PDB header:transferase
Chain: A: PDB Molecule:methionine synthase;
PDBTitle: adomet complex of meth c-terminal fragment
41d1nvma2
not modelled 87.6 12 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:HMGL-like
42d1ys7a2
not modelled 87.1 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
43c1nvmG_
not modelled 87.0 12 PDB header:lyase/oxidoreductase
Chain: G: PDB Molecule:4-hydroxy-2-oxovalerate aldolase;
PDBTitle: crystal structure of a bifunctional aldolase-dehydrogenase :2 sequestering a reactive and volatile intermediate
44c3khdC_
not modelled 86.4 12 PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pff1300w.
45d1h4pa_
not modelled 86.2 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
46c3eegB_
not modelled 85.9 13 PDB header:transferase
Chain: B: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of a 2-isopropylmalate synthase from2 cytophaga hutchinsonii
47d2h1qa1
not modelled 85.9 17 Fold:PLP-dependent transferase-like
Superfamily:Dhaf3308-like
Family:Dhaf3308-like
48c1ydnA_
not modelled 85.3 12 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of the hmg-coa lyase from brucella melitensis,2 northeast structural genomics target lr35.
49d1mvoa_
not modelled 84.6 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
50c2hk1D_
not modelled 84.1 11 PDB header:isomerase
Chain: D: PDB Molecule:d-psicose 3-epimerase;
PDBTitle: crystal structure of d-psicose 3-epimerase (dpease) in the presence of2 d-fructose
51c3hpxB_
not modelled 83.3 10 PDB header:transferase
Chain: B: PDB Molecule:2-isopropylmalate synthase;
PDBTitle: crystal structure of mycobacterium tuberculosis leua active site2 domain 1-425 (truncation mutant delta:426-644)
52d1t3ta2
not modelled 82.0 15 Fold:Flavodoxin-like
Superfamily:Class I glutamine amidotransferase-like
Family:Class I glutamine amidotransferases (GAT)
53d1eyea_
not modelled 79.9 18 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
54d2ix0a3
not modelled 79.4 26 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:Cold shock DNA-binding domain-like
55d7reqb2
not modelled 78.4 12 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
56d1k77a_
not modelled 78.4 10 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Hypothetical protein YgbM (EC1530)
57d1ny5a1
not modelled 76.9 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
58c3f6cB_
not modelled 75.4 11 PDB header:dna binding protein
Chain: B: PDB Molecule:positive transcription regulator evga;
PDBTitle: crystal structure of n-terminal domain of positive transcription2 regulator evga from escherichia coli
59d1f6ya_
not modelled 75.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Methyltetrahydrofolate-utiluzing methyltransferases
60c3ct7E_
not modelled 74.8 11 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
61c3cfyA_
not modelled 74.3 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative luxo repressor protein;
PDBTitle: crystal structure of signal receiver domain of putative luxo2 repressor protein from vibrio parahaemolyticus
62c3hdvB_
not modelled 73.6 20 PDB header:transcription regulator
Chain: B: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator receiver protein from2 pseudomonas putida
63c2yw3E_
not modelled 73.3 21 PDB header:lyase
Chain: E: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase/2-deydro-3-
PDBTitle: crystal structure analysis of the 4-hydroxy-2-oxoglutarate aldolase/2-2 deydro-3-deoxyphosphogluconate aldolase from tthb1
64c3cu2A_
not modelled 72.5 10 PDB header:isomerase
Chain: A: PDB Molecule:ribulose-5-phosphate 3-epimerase;
PDBTitle: crystal structure of ribulose-5-phosphate 3-epimerase (yp_718263.1)2 from haemophilus somnus 129pt at 1.91 a resolution
65d1krwa_
not modelled 72.5 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
66c3dx5A_
not modelled 71.2 10 PDB header:lyase
Chain: A: PDB Molecule:uncharacterized protein asbf;
PDBTitle: crystal structure of the probable 3-dhs dehydratase asbf involved in2 the petrobactin synthesis from bacillus anthracis
67c3grcD_
not modelled 70.7 15 PDB header:transferase
Chain: D: PDB Molecule:sensor protein, kinase;
PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666
68c3dxiB_
not modelled 70.7 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative aldolase;
PDBTitle: crystal structure of the n-terminal domain of a putative2 aldolase (bvu_2661) from bacteroides vulgatus
69d1x7fa2
not modelled 70.5 17 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Outer surface protein, N-terminal domain
70d1xima_
not modelled 69.0 13 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:Xylose isomerase
71d1uwva1
not modelled 68.4 17 Fold:OB-fold
Superfamily:Nucleic acid-binding proteins
Family:TRAM domain
72c2zwmA_
not modelled 67.3 15 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein yycf;
PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
73c1x7fA_
not modelled 67.3 21 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:outer surface protein;
PDBTitle: crystal structure of an uncharacterized b. cereus protein
74c3lteH_
not modelled 67.3 14 PDB header:transcription
Chain: H: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator (signal receiver domain) from2 bermanella marisrubri
75d1itua_
not modelled 67.0 16 Fold:TIM beta/alpha-barrel
Superfamily:Metallo-dependent hydrolases
Family:Renal dipeptidase
76d1xhfa1
not modelled 66.8 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
77d2pb1a1
not modelled 65.6 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
78c2zyfA_
not modelled 65.6 18 PDB header:transferase
Chain: A: PDB Molecule:homocitrate synthase;
PDBTitle: crystal structure of homocitrate synthase from thermus thermophilus2 complexed with magnesuim ion and alpha-ketoglutarate
79d1w25a1
not modelled 65.4 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
80c2jgqB_
not modelled 65.4 8 PDB header:isomerase
Chain: B: PDB Molecule:triosephosphate isomerase;
PDBTitle: kinetics and structural properties of triosephosphate2 isomerase from helicobacter pylori
81d1zgza1
not modelled 64.5 20 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
82c2rdmB_
not modelled 64.2 18 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator receiver protein from2 sinorhizobium medicae wsm419
83d1qmga2
not modelled 63.9 29 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
84d1u2za_
not modelled 63.7 23 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:Catalytic, N-terminal domain of histone methyltransferase Dot1l
85d1u0sy_
not modelled 63.6 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
86c3itcA_
not modelled 63.3 22 PDB header:hydrolase
Chain: A: PDB Molecule:renal dipeptidase;
PDBTitle: crystal structure of sco3058 with bound citrate and glycerol
87c2yciX_
not modelled 63.0 11 PDB header:transferase
Chain: X: PDB Molecule:5-methyltetrahydrofolate corrinoid/iron sulfur protein
PDBTitle: methyltransferase native
88c3dfuB_
not modelled 62.9 18 PDB header:oxidoreductase
Chain: B: PDB Molecule:uncharacterized protein from 6-phosphogluconate
PDBTitle: crystal structure of a putative rossmann-like dehydrogenase (cgl2689)2 from corynebacterium glutamicum at 2.07 a resolution
89d2a9pa1
not modelled 62.6 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
90c3jteA_
not modelled 62.5 15 PDB header:protein binding
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator receiver domain2 protein from clostridium thermocellum
91d2pl1a1
not modelled 62.4 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
92d1nw3a_
not modelled 61.7 18 Fold:S-adenosyl-L-methionine-dependent methyltransferases
Superfamily:S-adenosyl-L-methionine-dependent methyltransferases
Family:Catalytic, N-terminal domain of histone methyltransferase Dot1l
93c1nw3A_
not modelled 61.7 18 PDB header:transferase
Chain: A: PDB Molecule:histone methyltransferase dot1l;
PDBTitle: structure of the catalytic domain of human dot1l, a non-set2 domain nucleosomal histone methyltransferase
94c3c24A_
not modelled 61.4 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative oxidoreductase;
PDBTitle: crystal structure of a putative oxidoreductase (yp_511008.1) from2 jannaschia sp. ccs1 at 1.62 a resolution
95d1liua2
not modelled 61.3 19 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
96d1peya_
not modelled 60.9 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
97d1ka9h_
not modelled 60.5 21 Fold:Flavodoxin-like
Superfamily:Class I glutamine amidotransferase-like
Family:Class I glutamine amidotransferases (GAT)
98d1eiwa_
not modelled 60.4 20 Fold:Flavodoxin-like
Superfamily:Hypothetical protein MTH538
Family:Hypothetical protein MTH538
99d1qopa_
not modelled 60.4 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
100c1zfjA_
not modelled 60.1 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine monophosphate dehydrogenase;
PDBTitle: inosine monophosphate dehydrogenase (impdh; ec 1.1.1.205) from2 streptococcus pyogenes
101c3hn2A_
not modelled 60.1 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-dehydropantoate 2-reductase;
PDBTitle: crystal structure of 2-dehydropantoate 2-reductase from geobacter2 metallireducens gs-15
102c2p10D_
not modelled 59.2 20 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
103c3tr9A_
not modelled 58.8 15 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: structure of a dihydropteroate synthase (folp) in complex with pteroic2 acid from coxiella burnetii
104d1gpma2
not modelled 58.6 13 Fold:Flavodoxin-like
Superfamily:Class I glutamine amidotransferase-like
Family:Class I glutamine amidotransferases (GAT)
105c3ktoA_
not modelled 58.6 11 PDB header:transcription regulator
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator receiver protein2 from pseudoalteromonas atlantica
106c1ydoC_
not modelled 57.9 14 PDB header:lyase
Chain: C: PDB Molecule:hmg-coa lyase;
PDBTitle: crystal structure of the bacillis subtilis hmg-coa lyase, northeast2 structural genomics target sr181.
107d1p2fa2
not modelled 57.5 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
108c2rjnA_
not modelled 57.0 17 PDB header:hydrolase
Chain: A: PDB Molecule:response regulator receiver:metal-dependent
PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
109c2nt3A_
not modelled 56.5 12 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator homolog;
PDBTitle: receiver domain from myxococcus xanthus social motility protein frzs2 (y102a mutant)
110c2ou4C_
not modelled 56.4 12 PDB header:isomerase
Chain: C: PDB Molecule:d-tagatose 3-epimerase;
PDBTitle: crystal structure of d-tagatose 3-epimerase from2 pseudomonas cichorii
111c1u5tA_
not modelled 56.3 15 PDB header:transport protein
Chain: A: PDB Molecule:appears to be functionally related to snf7;
PDBTitle: structure of the escrt-ii endosomal trafficking complex
112c3fdgA_
not modelled 55.9 21 PDB header:hydrolase
Chain: A: PDB Molecule:dipeptidase ac. metallo peptidase. merops family m19;
PDBTitle: the crystal structure of the dipeptidase ac, metallo peptidase. merops2 family m19
113d1qkka_
not modelled 55.6 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
114c3cqkB_
not modelled 55.4 11 PDB header:isomerase
Chain: B: PDB Molecule:l-ribulose-5-phosphate 3-epimerase ulae;
PDBTitle: crystal structure of l-xylulose-5-phosphate 3-epimerase ulae (form b)2 complex with zn2+ and sulfate
115d1pdza1
not modelled 55.2 18 Fold:TIM beta/alpha-barrel
Superfamily:Enolase C-terminal domain-like
Family:Enolase
116c2c3yA_
55.1 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:pyruvate-ferredoxin oxidoreductase;
PDBTitle: crystal structure of the radical form of2 pyruvate:ferredoxin oxidoreductase from desulfovibrio3 africanus
117d1tx2a_
not modelled 54.5 18 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
118c1tx2A_
not modelled 54.5 18 PDB header:transferase
Chain: A: PDB Molecule:dhps, dihydropteroate synthase;
PDBTitle: dihydropteroate synthetase, with bound inhibitor manic, from bacillus2 anthracis
119d1gvia3
not modelled 54.4 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
120d1muma_
not modelled 53.8 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like

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