Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0A879
DateThu Jan 5 11:07:07 GMT 2012
Unique Job ID62583391f33df213

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template d1qopb_
Top template information
Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Confidence and coverage
Confidence:100.0% Coverage: 98%
390 residues ( 98% 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  MTTLLNPYFGEFGGMYVPQILMPALRQLEEAFVSAQKDPEFQAQFNDLLKNYAGRPTALT
Secondary structure 
























SS confidence 



























































Disorder  ???????















?



































Disorder confidence 



























































 
   .........70.........80.........90.........100.........110.........120
Sequence  KCQNITAGTNTTLYLKREDLLHGGAHKTNQVLGQALLAKRMGKTEIIAETGAGQHGVASA
Secondary structure 
























SS confidence 



























































Disorder 







































?
?
















Disorder confidence 



























































 
   .........130.........140.........150.........160.........170.........180
Sequence  LASALLGLKCRIYMGAKDVERQSPNVFRMRLMGAEVIPVHSGSATLKDACNEALRDWSGS
Secondary structure 














SS confidence 



























































Disorder 
















?????





































Disorder confidence 



























































 
   .........190.........200.........210.........220.........230.........240
Sequence  YETAHYMLGTAAGPHPYPTIVREFQRMIGEETKAQILEREGRLPDAVIACVGGGSNAIGM
Secondary structure 



























SS confidence 



























































Disorder 



























































Disorder confidence 



























































 
   .........250.........260.........270.........280.........290.........300
Sequence  FADFINETNVGLIGVEPGGHGIETGEHGAPLKHGRVGIYFGMKAPMMQTEDGQIEESYSI
Secondary structure 


















































SS confidence 



























































Disorder 




















???
























??








Disorder confidence 



























































 
   .........310.........320.........330.........340.........350.........360
Sequence  SAGLDFPSVGPQHAYLNSTGRADYVSITDDEALEAFKTLCLHEGIIPALESSHALAHALK
Secondary structure 
















SS confidence 



























































Disorder 



























































Disorder confidence 



























































 
   .........370.........380.........390.......
Sequence  MMRENPDKEQLLVVNLSGRGDKDIFTVHDILKARGEI
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 1qop chain B

3D model

Region: 2 - 391
Aligned: 390
Modelled: 390
Confidence: 100.0%
Identity: 97%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1x1q chain A

3D model

Region: 5 - 393
Aligned: 372
Modelled: 373
Confidence: 100.0%
Identity: 54%
PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase beta chain;
PDBTitle: crystal structure of tryptophan synthase beta chain from thermus2 thermophilus hb8

Phyre2

PDB 1v8z chain A domain 1

3D model

Region: 8 - 391
Aligned: 383
Modelled: 384
Confidence: 100.0%
Identity: 59%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 2o2j chain A

3D model

Region: 16 - 390
Aligned: 313
Modelled: 314
Confidence: 100.0%
Identity: 59%
PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase beta chain;
PDBTitle: mycobacterium tuberculosis tryptophan synthase beta chain2 dimer (apoform)

Phyre2

PDB 1wkv chain A domain 1

3D model

Region: 7 - 392
Aligned: 330
Modelled: 343
Confidence: 100.0%
Identity: 18%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1tdj chain A

3D model

Region: 39 - 393
Aligned: 316
Modelled: 331
Confidence: 100.0%
Identity: 21%
PDB header:allostery
Chain: A: PDB Molecule:biosynthetic threonine deaminase;
PDBTitle: threonine deaminase (biosynthetic) from e. coli

Phyre2

PDB 3iau chain A

3D model

Region: 37 - 395
Aligned: 319
Modelled: 340
Confidence: 100.0%
Identity: 22%
PDB header:lyase
Chain: A: PDB Molecule:threonine deaminase;
PDBTitle: the structure of the processed form of threonine deaminase isoform 22 from solanum lycopersicum

Phyre2

PDB 3pc3 chain A

3D model

Region: 51 - 395
Aligned: 305
Modelled: 322
Confidence: 100.0%
Identity: 21%
PDB header:lyase
Chain: A: PDB Molecule:cg1753, isoform a;
PDBTitle: full length structure of cystathionine beta-synthase from drosophila2 in complex with aminoacrylate

Phyre2

PDB 1v71 chain A domain 1

3D model

Region: 22 - 393
Aligned: 316
Modelled: 338
Confidence: 100.0%
Identity: 22%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1jbq chain A

3D model

Region: 49 - 395
Aligned: 301
Modelled: 324
Confidence: 100.0%
Identity: 22%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1jbq chain D

3D model

Region: 49 - 395
Aligned: 301
Modelled: 324
Confidence: 100.0%
Identity: 22%
PDB header:lyase
Chain: D: PDB Molecule:cystathionine beta-synthase;
PDBTitle: structure of human cystathionine beta-synthase: a unique pyridoxal 5'-2 phosphate dependent hemeprotein

Phyre2

PDB 2gn0 chain A

3D model

Region: 16 - 391
Aligned: 321
Modelled: 342
Confidence: 100.0%
Identity: 20%
PDB header:lyase
Chain: A: PDB Molecule:threonine dehydratase catabolic;
PDBTitle: crystal structure of dimeric biodegradative threonine deaminase (tdcb)2 from salmonella typhimurium at 1.7 a resolution (triclinic form with3 one complete subunit built in alternate conformation)

Phyre2

PDB 1z7w chain A domain 1

3D model

Region: 49 - 394
Aligned: 300
Modelled: 312
Confidence: 100.0%
Identity: 22%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1pwh chain A

3D model

Region: 56 - 395
Aligned: 303
Modelled: 317
Confidence: 100.0%
Identity: 22%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1tdj chain A domain 1

3D model

Region: 38 - 395
Aligned: 319
Modelled: 331
Confidence: 100.0%
Identity: 21%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 3r0z chain A

3D model

Region: 19 - 393
Aligned: 342
Modelled: 375
Confidence: 100.0%
Identity: 16%
PDB header:lyase
Chain: A: PDB Molecule:d-serine dehydratase;
PDBTitle: crystal structure of apo d-serine deaminase from salmonella2 typhimurium

Phyre2

PDB 3l6c chain A

3D model

Region: 25 - 387
Aligned: 309
Modelled: 319
Confidence: 100.0%
Identity: 19%
PDB header:isomerase
Chain: A: PDB Molecule:serine racemase;
PDBTitle: x-ray crystal structure of rat serine racemase in complex with2 malonate a potent inhibitor

Phyre2

PDB 1ve5 chain A domain 1

3D model

Region: 23 - 385
Aligned: 306
Modelled: 330
Confidence: 100.0%
Identity: 23%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2

PDB 1p5j chain A

3D model

Region: 55 - 395
Aligned: 303
Modelled: 322
Confidence: 100.0%
Identity: 21%
PDB header:lyase
Chain: A: PDB Molecule:l-serine dehydratase;
PDBTitle: crystal structure analysis of human serine dehydratase

Phyre2

PDB 1p5j chain A

3D model

Region: 55 - 395
Aligned: 303
Modelled: 322
Confidence: 100.0%
Identity: 21%
Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes

Phyre2
1

d1qopb_
2

c1x1qA_
3

d1v8za1
4

c2o2jA_
5

d1wkva1
6

c1tdjA_
7

c3iauA_
8

c3pc3A_
9

d1v71a1
10

d1jbqa_
11

c1jbqD_
12

c2gn0A_
13

d1z7wa1
14

d1pwha_
15

d1tdja1
16

c3r0zA_
17

c3l6cA_
18

d1ve5a1
19

c1p5jA_
20

d1p5ja_
21



22



23



24



25



26



27



28



29



30



31



32



33



34



35



36



37



38



39



40



41



42



43



44



45



46



47



48



49



50



51



52



53



54



55



56



57



58



59



60



61



62



63



64



65



66



67



68



69



70



71



72



73



74



75



76



77



78



79



80



81



82



83



84



85



86



87



88



89



90



91



92



93



94



95



96



97



98



99



100



101



102



103



104



105



106



107



108



109



110



111



112



113



114



115



116



117



118



119



120



121



122



123



124



125



126



127



128



129



130



131



132



133



134



135



136



137



138



139



140



141



142



143



144



145



146



147



148



149



150



151



152



153



154



155



156



157



158



159



160



161



162



163



164



165



166



167



168



169



170



171



172



173



174



175



176



177



178



179



180



181



182



183



184



185



186



187



188



189



190



191



192



193



194



195



196



197



198



199



200



201



202



203



204



205



206



207



208



209



210



211



212



213



214



215



216



217



218



219



220



221



222



223



224



225



226



227



228



229



230



231



232



233



234



235



236



237



238



239



240



241



242



243



244



245



246



247



248



249



250



251



252



253



254



255



256



257



258



259



260



261



262



263



264



265



266



267



268



269



270



271



272



273



274



275



276



277



278



279



280



281



282



283



284



285



286



287



288



289



290



291



292



293



294



295



296



297



298



299



300



301



302



303



304



305



306



307



308



309



310



311



312



313



314



315



316



317



318



319



320



321



322



323



324



325



326



327



328



329



330



331



332



333



334



335



336



337



338



339



340



341



342



343



344



345



346



347



348



349



350



351



352



353



354



355



356



357



358



359



360



361



362



363



364



365



366



367



368



369



370



371



372



373



374



375



376



377



378



379



380



381



382



383



384



385



386



387



388



389



390






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1d1qopb_



100.0 97 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
2c1x1qA_



100.0 54 PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase beta chain;
PDBTitle: crystal structure of tryptophan synthase beta chain from thermus2 thermophilus hb8
3d1v8za1



100.0 59 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
4c2o2jA_



100.0 59 PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase beta chain;
PDBTitle: mycobacterium tuberculosis tryptophan synthase beta chain2 dimer (apoform)
5d1wkva1



100.0 18 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
6c1tdjA_



100.0 21 PDB header:allostery
Chain: A: PDB Molecule:biosynthetic threonine deaminase;
PDBTitle: threonine deaminase (biosynthetic) from e. coli
7c3iauA_



100.0 22 PDB header:lyase
Chain: A: PDB Molecule:threonine deaminase;
PDBTitle: the structure of the processed form of threonine deaminase isoform 22 from solanum lycopersicum
8c3pc3A_



100.0 21 PDB header:lyase
Chain: A: PDB Molecule:cg1753, isoform a;
PDBTitle: full length structure of cystathionine beta-synthase from drosophila2 in complex with aminoacrylate
9d1v71a1



100.0 22 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
10d1jbqa_



100.0 22 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
11c1jbqD_



100.0 22 PDB header:lyase
Chain: D: PDB Molecule:cystathionine beta-synthase;
PDBTitle: structure of human cystathionine beta-synthase: a unique pyridoxal 5'-2 phosphate dependent hemeprotein
12c2gn0A_



100.0 20 PDB header:lyase
Chain: A: PDB Molecule:threonine dehydratase catabolic;
PDBTitle: crystal structure of dimeric biodegradative threonine deaminase (tdcb)2 from salmonella typhimurium at 1.7 a resolution (triclinic form with3 one complete subunit built in alternate conformation)
13d1z7wa1



100.0 22 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
14d1pwha_



100.0 22 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
15d1tdja1



100.0 21 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
16c3r0zA_



100.0 16 PDB header:lyase
Chain: A: PDB Molecule:d-serine dehydratase;
PDBTitle: crystal structure of apo d-serine deaminase from salmonella2 typhimurium
17c3l6cA_



100.0 19 PDB header:isomerase
Chain: A: PDB Molecule:serine racemase;
PDBTitle: x-ray crystal structure of rat serine racemase in complex with2 malonate a potent inhibitor
18d1ve5a1



100.0 23 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
19c1p5jA_



100.0 21 PDB header:lyase
Chain: A: PDB Molecule:l-serine dehydratase;
PDBTitle: crystal structure analysis of human serine dehydratase
20d1p5ja_



100.0 21 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
21d1ve1a1



not modelled 100.0 23 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
22c2pqmA_



not modelled 100.0 21 PDB header:lyase
Chain: A: PDB Molecule:cysteine synthase;
PDBTitle: crystal structure of cysteine synthase (oass) from entamoeba2 histolytica at 1.86 a resolution
23d2bhsa1



not modelled 100.0 24 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
24c3dwgA_



not modelled 100.0 22 PDB header:transferase
Chain: A: PDB Molecule:cysteine synthase b;
PDBTitle: crystal structure of a sulfur carrier protein complex found in the2 cysteine biosynthetic pathway of mycobacterium tuberculosis
25d1y7la1



not modelled 100.0 19 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
26c2q3bA_



not modelled 100.0 22 PDB header:transferase
Chain: A: PDB Molecule:cysteine synthase a;
PDBTitle: 1.8 a resolution crystal structure of o-acetylserine sulfhydrylase2 (oass) holoenzyme from mycobacterium tuberculosis
27c2d1fA_



not modelled 100.0 20 PDB header:lyase
Chain: A: PDB Molecule:threonine synthase;
PDBTitle: structure of mycobacterium tuberculosis threonine synthase
28d1v7ca_



not modelled 100.0 20 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
29c2zsjB_



not modelled 100.0 19 PDB header:lyase
Chain: B: PDB Molecule:threonine synthase;
PDBTitle: crystal structure of threonine synthase from aquifex aeolicus vf5
30d1o58a_



not modelled 100.0 24 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
31c2rkbE_



not modelled 100.0 20 PDB header:lyase
Chain: E: PDB Molecule:serine dehydratase-like;
PDBTitle: serine dehydratase like-1 from human cancer cells
32c2eguA_



not modelled 100.0 25 PDB header:transferase
Chain: A: PDB Molecule:cysteine synthase;
PDBTitle: crystal structure of o-acetylserine sulfhydrase from geobacillus2 kaustophilus hta426
33d1fcja_



not modelled 100.0 22 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
34d1f2da_



not modelled 100.0 16 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
35d1j0aa_



not modelled 100.0 18 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
36d1e5xa_



not modelled 100.0 16 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
37d1tyza_



not modelled 100.0 20 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
38d1vb3a1



not modelled 100.0 16 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
39d1kl7a_



not modelled 100.0 12 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes
Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes
40d1vp8a_



not modelled 95.2 16 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:MTH1675-like
41c3iupB_



not modelled 92.1 14 PDB header:oxidoreductase
Chain: B: PDB Molecule:putative nadph:quinone oxidoreductase;
PDBTitle: crystal structure of putative nadph:quinone oxidoreductase2 (yp_296108.1) from ralstonia eutropha jmp134 at 1.70 a resolution
42d1c1da1



not modelled 86.7 16 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Aminoacid dehydrogenase-like, C-terminal domain
43c3o93A_



not modelled 85.7 13 PDB header:hydrolase
Chain: A: PDB Molecule:nicotinamidase;
PDBTitle: high resolution crystal structures of streptococcus pneumoniae2 nicotinamidase with trapped intermediates provide insights into3 catalytic mechanism and inhibition by aldehydes
44d1bg6a2



not modelled 85.5 22 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
45d1hyua1



not modelled 84.4 23 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
46c3krtC_



not modelled 84.0 19 PDB header:oxidoreductase
Chain: C: PDB Molecule:crotonyl coa reductase;
PDBTitle: crystal structure of putative crotonyl coa reductase from streptomyces2 coelicolor a3(2)
47d1o8ca2



not modelled 84.0 20 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Alcohol dehydrogenase-like, C-terminal domain
48d1l7da1



not modelled 83.7 13 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Formate/glycerate dehydrogenases, NAD-domain
49d1nbaa_



not modelled 83.4 12 Fold:Isochorismatase-like hydrolases
Superfamily:Isochorismatase-like hydrolases
Family:Isochorismatase-like hydrolases
50c3d4oA_



not modelled 80.6 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:dipicolinate synthase subunit a;
PDBTitle: crystal structure of dipicolinate synthase subunit a (np_243269.1)2 from bacillus halodurans at 2.10 a resolution
51c3k30B_



not modelled 80.3 16 PDB header:oxidoreductase
Chain: B: PDB Molecule:histamine dehydrogenase;
PDBTitle: histamine dehydrogenase from nocardiodes simplex
52d1t57a_



not modelled 80.1 10 Fold:Pyruvate kinase C-terminal domain-like
Superfamily:PK C-terminal domain-like
Family:MTH1675-like
53c2rghA_



not modelled 77.1 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-glycerophosphate oxidase;
PDBTitle: structure of alpha-glycerophosphate oxidase from2 streptococcus sp.: a template for the mitochondrial alpha-3 glycerophosphate dehydrogenase
54d1fl2a1



not modelled 76.0 30 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
55d1im5a_



not modelled 74.1 15 Fold:Isochorismatase-like hydrolases
Superfamily:Isochorismatase-like hydrolases
Family:Isochorismatase-like hydrolases
56c1boiA_



not modelled 73.3 29 PDB header:transferase
Chain: A: PDB Molecule:rhodanese;
PDBTitle: n-terminally truncated rhodanese
57c3gbcA_



not modelled 73.3 17 PDB header:hydrolase
Chain: A: PDB Molecule:pyrazinamidase/nicotinamidas pnca;
PDBTitle: determination of the crystal structure of the pyrazinamidase from2 m.tuberculosis : a structure-function analysis for prediction3 resistance to pyrazinamide
58c2bruB_



not modelled 70.6 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:nad(p) transhydrogenase subunit alpha;
PDBTitle: complex of the domain i and domain iii of escherichia coli2 transhydrogenase
59c3oqpB_



not modelled 70.4 11 PDB header:hydrolase
Chain: B: PDB Molecule:putative isochorismatase;
PDBTitle: crystal structure of a putative isochorismatase (bxe_a0706) from2 burkholderia xenovorans lb400 at 1.22 a resolution
60d1trba1



not modelled 70.1 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
61d1vdca1



not modelled 69.1 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
62c3gmbB_



not modelled 69.1 24 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic2 acid oxygenase
63c1gl9B_



not modelled 68.9 13 PDB header:topoisomerase
Chain: B: PDB Molecule:reverse gyrase;
PDBTitle: archaeoglobus fulgidus reverse gyrase complexed with adpnp
64c2ywlA_



not modelled 68.4 33 PDB header:oxidoreductase
Chain: A: PDB Molecule:thioredoxin reductase related protein;
PDBTitle: crystal structure of thioredoxin reductase-related protein ttha03702 from thermus thermophilus hb8
65c2qx7A_



not modelled 68.3 18 PDB header:plant protein
Chain: A: PDB Molecule:eugenol synthase 1;
PDBTitle: structure of eugenol synthase from ocimum basilicum
66d1seza1



not modelled 68.1 28 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
67c3da1A_



not modelled 68.0 16 PDB header:oxidoreductase
Chain: A: PDB Molecule:glycerol-3-phosphate dehydrogenase;
PDBTitle: x-ray structure of the glycerol-3-phosphate dehydrogenase2 from bacillus halodurans complexed with fad. northeast3 structural genomics consortium target bhr167.
68d2i0za1



not modelled 67.9 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:HI0933 N-terminal domain-like
69c3d3kD_



not modelled 67.5 9 PDB header:protein binding
Chain: D: PDB Molecule:enhancer of mrna-decapping protein 3;
PDBTitle: crystal structure of human edc3p
70d1mv8a2



not modelled 67.4 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
71d1tt7a2



not modelled 66.3 8 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Alcohol dehydrogenase-like, C-terminal domain
72d1xgka_



not modelled 66.1 12 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
73d3lada1



not modelled 65.5 41 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
74c3oqpA_



not modelled 65.1 11 PDB header:hydrolase
Chain: A: PDB Molecule:putative isochorismatase;
PDBTitle: crystal structure of a putative isochorismatase (bxe_a0706) from2 burkholderia xenovorans lb400 at 1.22 a resolution
75d1o89a2



not modelled 64.7 17 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Alcohol dehydrogenase-like, C-terminal domain
76d1ml4a2



not modelled 64.3 12 Fold:ATC-like
Superfamily:Aspartate/ornithine carbamoyltransferase
Family:Aspartate/ornithine carbamoyltransferase
77d1dxla1



not modelled 63.9 30 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
78c3orqA_



not modelled 63.2 23 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
79c3hu5B_



not modelled 63.0 15 PDB header:hydrolase
Chain: B: PDB Molecule:isochorismatase family protein;
PDBTitle: crystal structure of isochorismatase family protein from desulfovibrio2 vulgaris subsp. vulgaris str. hildenborough
80d2cula1



not modelled 62.5 26 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:GidA-like
81d1ebda1



not modelled 62.4 37 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
82d1lvla1



not modelled 62.3 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
83d3lada2



not modelled 61.4 19 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
84d1v59a2



not modelled 61.3 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
85c3eywA_



not modelled 60.9 15 PDB header:transport protein
Chain: A: PDB Molecule:c-terminal domain of glutathione-regulated potassium-efflux
PDBTitle: crystal structure of the c-terminal domain of e. coli kefc in complex2 with keff
86c3ot4F_



not modelled 60.8 19 PDB header:hydrolase
Chain: F: PDB Molecule:putative isochorismatase;
PDBTitle: structure and catalytic mechanism of bordetella bronchiseptica nicf
87c2rgoA_



not modelled 60.7 24 PDB header:oxidoreductase
Chain: A: PDB Molecule:alpha-glycerophosphate oxidase;
PDBTitle: structure of alpha-glycerophosphate oxidase from2 streptococcus sp.: a template for the mitochondrial alpha-3 glycerophosphate dehydrogenase
88c1bg6A_



not modelled 60.5 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:n-(1-d-carboxylethyl)-l-norvaline dehydrogenase;
PDBTitle: crystal structure of the n-(1-d-carboxylethyl)-l-norvaline2 dehydrogenase from arthrobacter sp. strain 1c
89d1ryia1



not modelled 60.5 21 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
90c3allA_



not modelled 59.6 29 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase;
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid2 oxygenase, mutant y270a
91c3p2yA_



not modelled 59.5 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:alanine dehydrogenase/pyridine nucleotide transhydrogenase;
PDBTitle: crystal structure of alanine dehydrogenase/pyridine nucleotide2 transhydrogenase from mycobacterium smegmatis
92d2gf3a1



not modelled 58.7 30 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
93d1onfa2



not modelled 58.5 17 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
94c1djnB_



not modelled 58.3 23 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)
95c2vhyB_



not modelled 58.2 13 PDB header:oxidoreductase
Chain: B: PDB Molecule:alanine dehydrogenase;
PDBTitle: crystal structure of apo l-alanine dehydrogenase from2 mycobacterium tuberculosis
96c2hk8B_



not modelled 57.7 15 PDB header:oxidoreductase
Chain: B: PDB Molecule:shikimate dehydrogenase;
PDBTitle: crystal structure of shikimate dehydrogenase from aquifex2 aeolicus at 2.35 angstrom resolution
97c3c1oA_



not modelled 57.0 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:eugenol synthase;
PDBTitle: the multiple phenylpropene synthases in both clarkia2 breweri and petunia hybrida represent two distinct lineages
98c3eplA_



not modelled 56.9 15 PDB header:transferase/rna
Chain: A: PDB Molecule:trna isopentenyltransferase;
PDBTitle: crystallographic snapshots of eukaryotic2 dimethylallyltransferase acting on trna: insight into trna3 recognition and reaction mechanism
99d1neka2



not modelled 56.5 30 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
100c2bryA_



not modelled 56.5 26 PDB header:transport
Chain: A: PDB Molecule:nedd9 interacting protein with calponin homology
PDBTitle: crystal structure of the native monooxygenase domain of2 mical at 1.45 a resolution
101c3k96B_



not modelled 56.0 37 PDB header:oxidoreductase
Chain: B: PDB Molecule:glycerol-3-phosphate dehydrogenase [nad(p)+];
PDBTitle: 2.1 angstrom resolution crystal structure of glycerol-3-phosphate2 dehydrogenase (gpsa) from coxiella burnetii
102c3g05B_



not modelled 55.2 26 PDB header:rna binding protein
Chain: B: PDB Molecule:trna uridine 5-carboxymethylaminomethyl modification enzyme
PDBTitle: crystal structure of n-terminal domain (2-550) of e.coli mnmg
103d2iida1



not modelled 55.0 22 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
104c3fk4A_



not modelled 55.0 28 PDB header:isomerase
Chain: A: PDB Molecule:rubisco-like protein;
PDBTitle: crystal structure of rubisco-like protein from bacillus2 cereus atcc 14579
105d1qyda_



not modelled 54.9 15 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
106d1ojta1



not modelled 54.7 37 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
107c2xdoC_



not modelled 54.3 19 PDB header:oxidoreductase
Chain: C: PDB Molecule:tetx2 protein;
PDBTitle: structure of the tetracycline degrading monooxygenase tetx2 from2 bacteroides thetaiotaomicron
108c3f8rD_



not modelled 53.8 28 PDB header:oxidoreductase
Chain: D: PDB Molecule:thioredoxin reductase (trxb-3);
PDBTitle: crystal structure of sulfolobus solfataricus thioredoxin2 reductase b3 in complex with two nadp molecules
109d1lpfa1



not modelled 53.7 37 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD/NAD-linked reductases, N-terminal and central domains
110c2ze5A_



not modelled 53.6 9 PDB header:transferase
Chain: A: PDB Molecule:isopentenyl transferase;
PDBTitle: crystal structure of adenosine phosphate-isopentenyltransferase
111c3cumA_



not modelled 53.3 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:probable 3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of a possible 3-hydroxyisobutyrate dehydrogenase2 from pseudomonas aeruginosa pao1
112c3atrA_



not modelled 53.2 26 PDB header:oxidoreductase
Chain: A: PDB Molecule:conserved archaeal protein;
PDBTitle: geranylgeranyl reductase (ggr) from sulfolobus acidocaldarius co-2 crystallized with its ligand
113c1hyuA_



not modelled 53.0 30 PDB header:oxidoreductase
Chain: A: PDB Molecule:alkyl hydroperoxide reductase subunit f;
PDBTitle: crystal structure of intact ahpf
114c1pjcA_



not modelled 52.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:protein (l-alanine dehydrogenase);
PDBTitle: l-alanine dehydrogenase complexed with nad
115d2bs2a2



not modelled 52.8 26 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:Succinate dehydrogenase/fumarate reductase flavoprotein N-terminal domain
116d1kjqa2



not modelled 52.8 22 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
117c2vdcI_



not modelled 52.5 28 PDB header:oxidoreductase
Chain: I: PDB Molecule:glutamate synthase [nadph] small chain;
PDBTitle: the 9.5 a resolution structure of glutamate synthase from2 cryo-electron microscopy and its oligomerization behavior3 in solution: functional implications.
118c3d3jA_



not modelled 51.9 9 PDB header:protein binding
Chain: A: PDB Molecule:enhancer of mrna-decapping protein 3;
PDBTitle: crystal structure of human edc3p
119c3cgvA_



not modelled 51.8 30 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:geranylgeranyl reductase related protein;
PDBTitle: crystal structure of geranylgeranyl bacteriochlorophyll reductase-like2 fixc homolog (np_393992.1) from thermoplasma acidophilum at 1.60 a3 resolution
120c2gf2B_



not modelled 51.6 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:3-hydroxyisobutyrate dehydrogenase;
PDBTitle: crystal structure of human hydroxyisobutyrate dehydrogenase

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