Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP25665
DateThu Jan 5 11:42:13 GMT 2012
Unique Job IDa846860cea4aae9d

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1t7lA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: crystal structure of cobalamin-independent methionine2 synthase from t. maritima
Confidence and coverage
Confidence:100.0% Coverage: 96%
725 residues ( 96% 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  MTILNHTLGFPRVGLRRELKKAQESYWAGNSTREELLAVGRELRARHWDQQKQAGIDLLP
Secondary structure 
SS confidence 
Disorder  ???????
?
??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VGDFAWYDHVLTTSLLLGNVPARHQNKDGSVDIDTLFRIGRGRAPTGEPAAAAEMTKWFN
Secondary structure 
SS confidence 
Disorder 
????
???????
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  TNYHYMVPEFVKGQQFKLTWTQLLDEVDEALALGHKVKPVLLGPVTWLWLGKVKGEQFDR
Secondary structure 
SS confidence 
Disorder 
?
????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  LSLLNDILPVYQQVLAELAKRGIEWVQIDEPALVLELPQAWLDAYKPAYDALQGQVKLLL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  TTYFEGVTPNLDTITALPVQGLHVDLVHGKDDVAELHKRLPSDWLLSAGLINGRNVWRAD
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  LTEKYAQIKDIVGKRDLWVASSCSLLHSPIDLSVETRLDAEVKSWFAFALQKCHELALLR
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  DALNSGDTAALAEWSAPIQARRHSTRVHNPAVEKRLAAITAQDSQRANVYEVRAEAQRAR
Secondary structure 
SS confidence 
Disorder 
?
?
??
????
????????????????
?
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  FKLPAWPTTTIGSFPQTTEIRTLRLDFKKGNLDANNYRTGIAEHIKQAIVEQERLGLDVL
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  VHGEAERNDMVEYFGEHLDGFVFTQNGWVQSYGSRCVKPPIVIGDISRPAPITVEWAKYA
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........550.........560.........570.........580.........590.........600
Sequence  QSLTDKPVKGMLTGPVTILCWSFPREDVSRETIAKQIALALRDEVADLEAAGIGIIQIDE
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........610.........620.........630.........640.........650.........660
Sequence  PALREGLPLRRSDWDAYLQWGVEAFRINAAVAKDDTQIHTHMCYCEFNDIMDSIAALDAD
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........670.........680.........690.........700.........710.........720
Sequence  VITIETSRSDMELLESFEEFDYPNEIGPGVYDIHSPNVPSVEWIEALLKKAAKRIPAERL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........730.........740.........750...
Sequence  WVNPDCGLKTRGWPETRAALANMVQAAQNLRRG
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 1t7l chain A

3D model

Region: 1 - 752
Aligned: 725
Modelled: 748
Confidence: 100.0%
Identity: 42%
PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: crystal structure of cobalamin-independent methionine2 synthase from t. maritima

Phyre2

PDB 3l7s chain A

3D model

Region: 1 - 752
Aligned: 728
Modelled: 747
Confidence: 100.0%
Identity: 46%
PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--homocysteine
PDBTitle: crystal structure of mete coordinated with zinc from streptococcus2 mutans

Phyre2

PDB 1u22 chain A

3D model

Region: 5 - 752
Aligned: 731
Modelled: 748
Confidence: 100.0%
Identity: 50%
PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: a. thaliana cobalamine independent methionine synthase

Phyre2

PDB 2nq5 chain A

3D model

Region: 1 - 752
Aligned: 699
Modelled: 711
Confidence: 100.0%
Identity: 46%
PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: crystal structure of methyltransferase from streptococcus2 mutans

Phyre2

PDB 1u1h chain A domain 1

3D model

Region: 5 - 389
Aligned: 381
Modelled: 385
Confidence: 100.0%
Identity: 41%
Fold: TIM beta/alpha-barrel
Superfamily: UROD/MetE-like
Family: Cobalamin-independent methionine synthase

Phyre2

PDB 1u1h chain A domain 2

3D model

Region: 390 - 752
Aligned: 350
Modelled: 363
Confidence: 100.0%
Identity: 58%
Fold: TIM beta/alpha-barrel
Superfamily: UROD/MetE-like
Family: Cobalamin-independent methionine synthase

Phyre2

PDB 3rpd chain B

3D model

Region: 425 - 752
Aligned: 317
Modelled: 328
Confidence: 100.0%
Identity: 27%
PDB header:transferase
Chain: B: PDB Molecule:methionine synthase (b12-independent);
PDBTitle: the structure of a b12-independent methionine synthase from shewanella2 sp. w3-18-1 in complex with selenomethionine.

Phyre2

PDB 1ypx chain A

3D model

Region: 422 - 752
Aligned: 310
Modelled: 317
Confidence: 100.0%
Identity: 19%
PDB header:transferase
Chain: A: PDB Molecule:putative vitamin-b12 independent methionine synthase family
PDBTitle: crystal structure of the putative vitamin-b12 independent methionine2 synthase from listeria monocytogenes, northeast structural genomics3 target lmr13

Phyre2

PDB 1j93 chain A

3D model

Region: 538 - 751
Aligned: 198
Modelled: 214
Confidence: 99.6%
Identity: 15%
Fold: TIM beta/alpha-barrel
Superfamily: UROD/MetE-like
Family: Uroporphyrinogen decarboxylase, UROD

Phyre2

PDB 3cyv chain A

3D model

Region: 545 - 752
Aligned: 193
Modelled: 208
Confidence: 99.5%
Identity: 14%
PDB header:lyase
Chain: A: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 shigella flexineri: new insights into its catalytic3 mechanism

Phyre2

PDB 1jpk chain A

3D model

Region: 534 - 750
Aligned: 201
Modelled: 217
Confidence: 99.5%
Identity: 15%
PDB header:lyase
Chain: A: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: gly156asp mutant of human urod, human uroporphyrinogen iii2 decarboxylase

Phyre2

PDB 1r3s chain A

3D model

Region: 538 - 750
Aligned: 198
Modelled: 213
Confidence: 99.4%
Identity: 17%
Fold: TIM beta/alpha-barrel
Superfamily: UROD/MetE-like
Family: Uroporphyrinogen decarboxylase, UROD

Phyre2

PDB 2inf chain B

3D model

Region: 538 - 750
Aligned: 197
Modelled: 213
Confidence: 99.4%
Identity: 13%
PDB header:lyase
Chain: B: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 bacillus subtilis

Phyre2

PDB 2eja chain B

3D model

Region: 534 - 749
Aligned: 199
Modelled: 216
Confidence: 99.4%
Identity: 18%
PDB header:lyase
Chain: B: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 aquifex aeolicus

Phyre2

PDB 3qc3 chain B

3D model

Region: 581 - 751
Aligned: 156
Modelled: 156
Confidence: 93.7%
Identity: 15%
PDB header:isomerase
Chain: B: PDB Molecule:d-ribulose-5-phosphate-3-epimerase;
PDBTitle: crystal structure of a d-ribulose-5-phosphate-3-epimerase (np_954699)2 from homo sapiens at 2.20 a resolution

Phyre2

PDB 1rpx chain A

3D model

Region: 191 - 264
Aligned: 67
Modelled: 74
Confidence: 93.5%
Identity: 12%
Fold: TIM beta/alpha-barrel
Superfamily: Ribulose-phoshate binding barrel
Family: D-ribulose-5-phosphate 3-epimerase

Phyre2

PDB 1h1y chain A

3D model

Region: 191 - 290
Aligned: 93
Modelled: 100
Confidence: 91.7%
Identity: 13%
Fold: TIM beta/alpha-barrel
Superfamily: Ribulose-phoshate binding barrel
Family: D-ribulose-5-phosphate 3-epimerase

Phyre2

PDB 3inp chain A

3D model

Region: 191 - 290
Aligned: 94
Modelled: 100
Confidence: 91.7%
Identity: 11%
PDB header:isomerase
Chain: A: PDB Molecule:d-ribulose-phosphate 3-epimerase;
PDBTitle: 2.05 angstrom resolution crystal structure of d-ribulose-phosphate 3-2 epimerase from francisella tularensis.

Phyre2

PDB 1tqj chain A

3D model

Region: 191 - 290
Aligned: 93
Modelled: 100
Confidence: 91.1%
Identity: 13%
Fold: TIM beta/alpha-barrel
Superfamily: Ribulose-phoshate binding barrel
Family: D-ribulose-5-phosphate 3-epimerase

Phyre2

PDB 1yad chain D

3D model

Region: 193 - 290
Aligned: 85
Modelled: 98
Confidence: 90.4%
Identity: 8%
PDB header:transcription
Chain: D: PDB Molecule:regulatory protein teni;
PDBTitle: structure of teni from bacillus subtilis

Phyre2
1
c1t7lA_
2
c3l7sA_
3
c1u22A_
4
c2nq5A_
5
d1u1ha1
6
d1u1ha2
7
c3rpdB_
8
c1ypxA_
9
d1j93a_
10
c3cyvA_
11
c1jpkA_
12
d1r3sa_
13
c2infB_
14
c2ejaB_
15
c3qc3B_
16
d1rpxa_
17
d1h1ya_
18
c3inpA_
19
d1tqja_
20
c1yadD_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
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41
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43
44
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1t7lA_
100.0 42 PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: crystal structure of cobalamin-independent methionine2 synthase from t. maritima
2c3l7sA_
100.0 46 PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--homocysteine
PDBTitle: crystal structure of mete coordinated with zinc from streptococcus2 mutans
3c1u22A_
100.0 50 PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: a. thaliana cobalamine independent methionine synthase
4c2nq5A_
100.0 46 PDB header:transferase
Chain: A: PDB Molecule:5-methyltetrahydropteroyltriglutamate--
PDBTitle: crystal structure of methyltransferase from streptococcus2 mutans
5d1u1ha1
100.0 41 Fold:TIM beta/alpha-barrel
Superfamily:UROD/MetE-like
Family:Cobalamin-independent methionine synthase
6d1u1ha2
100.0 58 Fold:TIM beta/alpha-barrel
Superfamily:UROD/MetE-like
Family:Cobalamin-independent methionine synthase
7c3rpdB_
100.0 27 PDB header:transferase
Chain: B: PDB Molecule:methionine synthase (b12-independent);
PDBTitle: the structure of a b12-independent methionine synthase from shewanella2 sp. w3-18-1 in complex with selenomethionine.
8c1ypxA_
100.0 19 PDB header:transferase
Chain: A: PDB Molecule:putative vitamin-b12 independent methionine synthase family
PDBTitle: crystal structure of the putative vitamin-b12 independent methionine2 synthase from listeria monocytogenes, northeast structural genomics3 target lmr13
9d1j93a_
99.6 15 Fold:TIM beta/alpha-barrel
Superfamily:UROD/MetE-like
Family:Uroporphyrinogen decarboxylase, UROD
10c3cyvA_
99.5 14 PDB header:lyase
Chain: A: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 shigella flexineri: new insights into its catalytic3 mechanism
11c1jpkA_
99.5 15 PDB header:lyase
Chain: A: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: gly156asp mutant of human urod, human uroporphyrinogen iii2 decarboxylase
12d1r3sa_
99.4 17 Fold:TIM beta/alpha-barrel
Superfamily:UROD/MetE-like
Family:Uroporphyrinogen decarboxylase, UROD
13c2infB_
99.4 13 PDB header:lyase
Chain: B: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 bacillus subtilis
14c2ejaB_
99.4 18 PDB header:lyase
Chain: B: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: crystal structure of uroporphyrinogen decarboxylase from2 aquifex aeolicus
15c3qc3B_
93.7 15 PDB header:isomerase
Chain: B: PDB Molecule:d-ribulose-5-phosphate-3-epimerase;
PDBTitle: crystal structure of a d-ribulose-5-phosphate-3-epimerase (np_954699)2 from homo sapiens at 2.20 a resolution
16d1rpxa_
93.5 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
17d1h1ya_
91.7 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
18c3inpA_
91.7 11 PDB header:isomerase
Chain: A: PDB Molecule:d-ribulose-phosphate 3-epimerase;
PDBTitle: 2.05 angstrom resolution crystal structure of d-ribulose-phosphate 3-2 epimerase from francisella tularensis.
19d1tqja_
91.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
20c1yadD_
90.4 8 PDB header:transcription
Chain: D: PDB Molecule:regulatory protein teni;
PDBTitle: structure of teni from bacillus subtilis
21c3nm3D_
not modelled 90.3 18 PDB header:transferase
Chain: D: PDB Molecule:thiamine biosynthetic bifunctional enzyme;
PDBTitle: the crystal structure of candida glabrata thi6, a bifunctional enzyme2 involved in thiamin biosyhthesis of eukaryotes
22c3ceuA_
not modelled 90.3 8 PDB header:transferase
Chain: A: PDB Molecule:thiamine phosphate pyrophosphorylase;
PDBTitle: crystal structure of thiamine phosphate pyrophosphorylase2 (bt_0647) from bacteroides thetaiotaomicron. northeast3 structural genomics consortium target btr268
23d1tqxa_
not modelled 88.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
24d2tpsa_
not modelled 87.7 18 Fold:TIM beta/alpha-barrel
Superfamily:Thiamin phosphate synthase
Family:Thiamin phosphate synthase
25c3bolB_
not modelled 84.6 14 PDB header:transferase
Chain: B: PDB Molecule:5-methyltetrahydrofolate s-homocysteine
PDBTitle: cobalamin-dependent methionine synthase (1-566) from2 thermotoga maritima complexed with zn2+
26c3cu2A_
not modelled 80.7 19 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
27c3lrmB_
not modelled 80.2 13 PDB header:hydrolase
Chain: B: PDB Molecule:alpha-galactosidase 1;
PDBTitle: structure of alfa-galactosidase from saccharomyces cerevisiae with2 raffinose
28d1xi3a_
not modelled 79.4 13 Fold:TIM beta/alpha-barrel
Superfamily:Thiamin phosphate synthase
Family:Thiamin phosphate synthase
29c3ipwA_
not modelled 76.3 20 PDB header:hydrolase
Chain: A: PDB Molecule:hydrolase tatd family protein;
PDBTitle: crystal structure of hydrolase tatd family protein from entamoeba2 histolytica
30d1ojxa_
not modelled 75.8 21 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
31c3a23A_
not modelled 75.5 17 PDB header:hydrolase
Chain: A: PDB Molecule:putative secreted alpha-galactosidase;
PDBTitle: crystal structure of beta-l-arabinopyranosidase complexed with d-2 galactose
32c2ze3A_
not modelled 71.9 15 PDB header:isomerase
Chain: A: PDB Molecule:dfa0005;
PDBTitle: crystal structure of dfa0005 complexed with alpha-ketoglutarate: a2 novel member of the icl/pepm superfamily from alkali-tolerant3 deinococcus ficus
33c2bmbA_
not modelled 70.9 13 PDB header:transferase
Chain: A: PDB Molecule:folic acid synthesis protein fol1;
PDBTitle: x-ray structure of the bifunctional 6-hydroxymethyl-7,8-2 dihydroxypterin pyrophosphokinase dihydropteroate synthase3 from saccharomyces cerevisiae
34d3bofa2
not modelled 69.2 14 Fold:TIM beta/alpha-barrel
Superfamily:Homocysteine S-methyltransferase
Family:Homocysteine S-methyltransferase
35c2h90A_
not modelled 69.1 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
36d1ur4a_
not modelled 63.3 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:beta-glycanases
37d1r46a2
not modelled 60.8 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
38d2flia1
not modelled 60.4 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
39d1uasa2
not modelled 58.8 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
40d1qapa1
not modelled 57.9 20 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
41c1tx2A_
not modelled 57.0 17 PDB header:transferase
Chain: A: PDB Molecule:dhps, dihydropteroate synthase;
PDBTitle: dihydropteroate synthetase, with bound inhibitor manic, from bacillus2 anthracis
42d1tx2a_
not modelled 57.0 17 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
43c3ct7E_
not modelled 56.6 10 PDB header:isomerase
Chain: E: PDB Molecule:d-allulose-6-phosphate 3-epimerase;
PDBTitle: crystal structure of d-allulose 6-phosphate 3-epimerase2 from escherichia coli k-12
44c2qjhH_
not modelled 56.1 17 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
45c3tr9A_
not modelled 56.1 13 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: structure of a dihydropteroate synthase (folp) in complex with pteroic2 acid from coxiella burnetii
46d1ps9a1
not modelled 55.3 15 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
47c2jbmA_
not modelled 54.3 16 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: qprtase structure from human
48c1j0yD_
not modelled 53.6 14 PDB header:hydrolase
Chain: D: PDB Molecule:beta-amylase;
PDBTitle: beta-amylase from bacillus cereus var. mycoides in complex2 with glucose
49c1qapA_
not modelled 53.6 20 PDB header:glycosyltransferase
Chain: A: PDB Molecule:quinolinic acid phosphoribosyltransferase;
PDBTitle: quinolinic acid phosphoribosyltransferase with bound2 quinolinic acid
50c3l2iB_
not modelled 53.5 14 PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: 1.85 angstrom crystal structure of the 3-dehydroquinate dehydratase2 (arod) from salmonella typhimurium lt2.
51c1ps9A_
not modelled 52.7 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:2,4-dienoyl-coa reductase;
PDBTitle: the crystal structure and reaction mechanism of e. coli 2,4-2 dienoyl coa reductase
52c3a5vA_
not modelled 52.3 12 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-galactosidase;
PDBTitle: crystal structure of alpha-galactosidase i from mortierella vinacea
53d1vema2
not modelled 51.9 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
54c2gl0A_
not modelled 51.5 32 PDB header:transferase
Chain: A: PDB Molecule:conserved hypothetical protein;
PDBTitle: structure of pae2307 in complex with adenosine
55c3hf3A_
not modelled 50.4 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:chromate reductase;
PDBTitle: old yellow enzyme from thermus scotoductus sa-01
56c1o4uA_
not modelled 47.1 11 PDB header:transferase
Chain: A: PDB Molecule:type ii quinolic acid phosphoribosyltransferase;
PDBTitle: crystal structure of a nicotinate nucleotide pyrophosphorylase2 (tm1645) from thermotoga maritima at 2.50 a resolution
57c3e2vA_
not modelled 45.7 18 PDB header:hydrolase
Chain: A: PDB Molecule:3'-5'-exonuclease;
PDBTitle: crystal structure of an uncharacterized amidohydrolase from2 saccharomyces cerevisiae
58c2y5sA_
not modelled 44.6 18 PDB header:transferase
Chain: A: PDB Molecule:dihydropteroate synthase;
PDBTitle: crystal structure of burkholderia cenocepacia dihydropteroate2 synthase complexed with 7,8-dihydropteroate.
59c2d16B_
not modelled 43.4 21 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:hypothetical protein ph1918;
PDBTitle: crystal structure of ph1918 protein from pyrococcus horikoshii ot3
60c1x1oC_
not modelled 42.7 21 PDB header:transferase
Chain: C: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of project id tt0268 from thermus thermophilus hb8
61d1e0ta2
not modelled 42.4 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
62d1o4ua1
not modelled 41.7 11 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
63d1vgga_
not modelled 41.0 22 Fold:Ta1353-like
Superfamily:Ta1353-like
Family:Ta1353-like
64c3f41B_
not modelled 40.7 18 PDB header:hydrolase
Chain: B: PDB Molecule:phytase;
PDBTitle: structure of the tandemly repeated protein tyrosine2 phosphatase like phytase from mitsuokella multacida
65d1rd5a_
not modelled 40.3 20 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
66c1djnB_
not modelled 40.1 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:trimethylamine dehydrogenase;
PDBTitle: structural and biochemical characterization of recombinant wild type2 trimethylamine dehydrogenase from methylophilus methylotrophus (sp.3 w3a1)
67c2jvfA_
not modelled 39.8 20 PDB header:de novo protein
Chain: A: PDB Molecule:de novo protein m7;
PDBTitle: solution structure of m7, a computationally-designed2 artificial protein
68d1qopa_
not modelled 39.6 16 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
69c3bg3B_
not modelled 37.9 12 PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase, mitochondrial;
PDBTitle: crystal structure of human pyruvate carboxylase (missing2 the biotin carboxylase domain at the n-terminus)
70d1xcfa_
not modelled 37.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
71c3thaB_
not modelled 35.1 17 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni.
72c3l0gD_
not modelled 35.1 16 PDB header:transferase
Chain: D: PDB Molecule:nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of nicotinate-nucleotide pyrophosphorylase from2 ehrlichia chaffeensis at 2.05a resolution
73d1ad1a_
not modelled 34.9 19 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
74c3labA_
not modelled 34.6 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative kdpg (2-keto-3-deoxy-6-phosphogluconate)
PDBTitle: crystal structure of a putative kdpg (2-keto-3-deoxy-6-2 phosphogluconate) aldolase from oleispira antarctica
75d1luca_
not modelled 34.3 7 Fold:TIM beta/alpha-barrel
Superfamily:Bacterial luciferase-like
Family:Bacterial luciferase (alkanal monooxygenase)
76c2b7pA_
not modelled 34.3 16 PDB header:transferase
Chain: A: PDB Molecule:probable nicotinate-nucleotide pyrophosphorylase;
PDBTitle: crystal structure of quinolinic acid phosphoribosyltransferase from2 helicobacter pylori
77d1umya_
not modelled 33.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Homocysteine S-methyltransferase
Family:Homocysteine S-methyltransferase
78c2xioA_
not modelled 32.6 18 PDB header:hydrolase
Chain: A: PDB Molecule:putative deoxyribonuclease tatdn1;
PDBTitle: structure of putative deoxyribonuclease tatdn1 isoform a
79c2fcdA_
not modelled 31.0 13 PDB header:cell cycle
Chain: A: PDB Molecule:myosin light chain 1;
PDBTitle: solution structure of n-lobe myosin light chain from2 saccharomices cerevisiae
80c3pajA_
not modelled 30.7 20 PDB header:transferase
Chain: A: PDB Molecule:nicotinate-nucleotide pyrophosphorylase, carboxylating;
PDBTitle: 2.00 angstrom resolution crystal structure of a quinolinate2 phosphoribosyltransferase from vibrio cholerae o1 biovar eltor str.3 n16961
81c1mh3A_
not modelled 29.8 12 PDB header:sugar binding, dna binding protein
Chain: A: PDB Molecule:maltose binding-a1 homeodomain protein chimera;
PDBTitle: maltose binding-a1 homeodomain protein chimera, crystal2 form i
82c3js3C_
not modelled 28.8 13 PDB header:lyase
Chain: C: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystal structure of type i 3-dehydroquinate dehydratase (arod) from2 clostridium difficile with covalent reaction intermediate
83d3bofa1
not modelled 28.3 13 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Methyltetrahydrofolate-utiluzing methyltransferases
84c3o63B_
not modelled 27.4 18 PDB header:transferase
Chain: B: PDB Molecule:probable thiamine-phosphate pyrophosphorylase;
PDBTitle: crystal structure of thiamin phosphate synthase from mycobacterium2 tuberculosis
85c3fpjA_
not modelled 27.4 16 PDB header:biosynthetic protein, transferase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: crystal structure of e81q mutant of mtnas in complex with s-2 adenosylmethionine
86c2wdfA_
not modelled 26.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:sulfur oxidation protein soxb;
PDBTitle: termus thermophilus sulfate thiohydrolase soxb
87d1gqna_
not modelled 26.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
88d1wa3a1
not modelled 26.5 7 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
89c1qysA_
not modelled 24.4 13 PDB header:de novo protein
Chain: A: PDB Molecule:top7;
PDBTitle: crystal structure of top7: a computationally designed2 protein with a novel fold
90c3l5aA_
not modelled 24.2 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadh/flavin oxidoreductase/nadh oxidase;
PDBTitle: crystal structure of a probable nadh-dependent flavin oxidoreductase2 from staphylococcus aureus
91c3rhgA_
not modelled 23.8 13 PDB header:hydrolase
Chain: A: PDB Molecule:putative phophotriesterase;
PDBTitle: crystal structure of amidohydrolase pmi1525 (target efi-500319) from2 proteus mirabilis hi4320
92c2v82A_
not modelled 23.7 14 PDB header:lyase
Chain: A: PDB Molecule:2-dehydro-3-deoxy-6-phosphogalactonate aldolase;
PDBTitle: kdpgal complexed to kdpgal
93c2ekcA_
not modelled 23.4 20 PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5
94c3a98A_
not modelled 23.3 16 PDB header:signaling protein
Chain: A: PDB Molecule:dedicator of cytokinesis protein 2;
PDBTitle: crystal structure of the complex of the interacting regions of dock22 and elmo1
95d1pkla2
not modelled 23.1 16 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
96c2yr1B_
not modelled 23.1 13 PDB header:lyase
Chain: B: PDB Molecule:3-dehydroquinate dehydratase;
PDBTitle: crystal structure of 3-dehydroquinate dehydratase from geobacillus2 kaustophilus hta426
97d1vjia_
not modelled 22.9 13 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
98d1piia1
not modelled 22.4 16 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
99d1ajza_
not modelled 21.7 20 Fold:TIM beta/alpha-barrel
Superfamily:Dihydropteroate synthetase-like
Family:Dihydropteroate synthetase
100c3gndC_
not modelled 21.7 15 PDB header:lyase
Chain: C: PDB Molecule:aldolase lsrf;
PDBTitle: crystal structure of e. coli lsrf in complex with ribulose-5-phosphate
101d1qpoa1
not modelled 21.4 16 Fold:TIM beta/alpha-barrel
Superfamily:Nicotinate/Quinolinate PRTase C-terminal domain-like
Family:NadC C-terminal domain-like
102c2vefB_
not modelled 21.3 21 PDB header:transferase
Chain: B: PDB Molecule:dihydropteroate synthase;
PDBTitle: dihydropteroate synthase from streptococcus pneumoniae

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