Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP39359
DateThu Jan 5 11:59:49 GMT 2012
Unique Job ID50a6135d3a0c198b

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2v9dB_
Top template information
PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
Confidence and coverage
Confidence:100.0% Coverage: 98%
295 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  MKKFSGIIPPVSSTFHRDGTLDKKAMREVADFLINKGVDGLFYLGTGGEFSQMNTAQRMA
Secondary structure 































SS confidence 



























































Disorder  ??????





















































Disorder confidence 



























































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























SS confidence 



























































Disorder 



























































Disorder confidence 



























































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



















SS confidence 



























































Disorder 



























































Disorder confidence 



























































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












SS confidence 



























































Disorder 



























































Disorder confidence 



























































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




























SS confidence 



























































Disorder 







































?













?
???
Disorder confidence 



























































 
   .
Sequence  V
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 2v9d chain B

3D model

Region: 4 - 298
Aligned: 295
Modelled: 295
Confidence: 100.0%
Identity: 57%
PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12

Phyre2

PDB 3flu chain D

3D model

Region: 1 - 299
Aligned: 293
Modelled: 299
Confidence: 100.0%
Identity: 32%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis

Phyre2

PDB 3g0s chain A

3D model

Region: 2 - 299
Aligned: 293
Modelled: 298
Confidence: 100.0%
Identity: 28%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2

Phyre2

PDB 2a6n chain A domain 1

3D model

Region: 4 - 299
Aligned: 291
Modelled: 296
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 1xxx chain A domain 1

3D model

Region: 2 - 299
Aligned: 290
Modelled: 298
Confidence: 100.0%
Identity: 26%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 1o5k chain A

3D model

Region: 4 - 299
Aligned: 292
Modelled: 296
Confidence: 100.0%
Identity: 29%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3si9 chain B

3D model

Region: 4 - 299
Aligned: 291
Modelled: 293
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae

Phyre2

PDB 1f74 chain A

3D model

Region: 1 - 298
Aligned: 291
Modelled: 298
Confidence: 100.0%
Identity: 26%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3pue chain A

3D model

Region: 3 - 299
Aligned: 291
Modelled: 297
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution

Phyre2

PDB 3bi8 chain A

3D model

Region: 2 - 299
Aligned: 291
Modelled: 298
Confidence: 100.0%
Identity: 24%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum

Phyre2

PDB 1xky chain A domain 1

3D model

Region: 1 - 296
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 28%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 3noe chain A

3D model

Region: 4 - 299
Aligned: 290
Modelled: 296
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa

Phyre2

PDB 3n2x chain B

3D model

Region: 4 - 298
Aligned: 294
Modelled: 295
Confidence: 100.0%
Identity: 57%
PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate

Phyre2

PDB 3cpr chain B

3D model

Region: 1 - 299
Aligned: 290
Modelled: 299
Confidence: 100.0%
Identity: 29%
PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthetase;
PDBTitle: the crystal structure of corynebacterium glutamicum2 dihydrodipicolinate synthase to 2.2 a resolution

Phyre2

PDB 2r8w chain B

3D model

Region: 2 - 297
Aligned: 293
Modelled: 296
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: B: PDB Molecule:agr_c_1641p;
PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58

Phyre2

PDB 1hl2 chain A

3D model

Region: 2 - 296
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 25%
Fold: TIM beta/alpha-barrel
Superfamily: Aldolase
Family: Class I aldolase

Phyre2

PDB 2yxg chain D

3D model

Region: 4 - 299
Aligned: 288
Modelled: 296
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)

Phyre2

PDB 3s5o chain A

3D model

Region: 3 - 299
Aligned: 291
Modelled: 297
Confidence: 100.0%
Identity: 25%
PDB header:lyase
Chain: A: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase, mitochondrial;
PDBTitle: crystal structure of human 4-hydroxy-2-oxoglutarate aldolase bound to2 pyruvate

Phyre2

PDB 2ehh chain E

3D model

Region: 4 - 298
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus

Phyre2

PDB 3eb2 chain A

3D model

Region: 3 - 296
Aligned: 288
Modelled: 294
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution

Phyre2
1

c2v9dB_
2

c3fluD_
3

c3g0sA_
4

d2a6na1
5

d1xxxa1
6

d1o5ka_
7

c3si9B_
8

d1f74a_
9

c3pueA_
10

c3bi8A_
11

d1xkya1
12

c3noeA_
13

c3n2xB_
14

c3cprB_
15

c2r8wB_
16

d1hl2a_
17

c2yxgD_
18

c3s5oA_
19

c2ehhE_
20

c3eb2A_
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



391



392



393



394



395



396



397



398



399



400



401



402



403



404



405



406



407



408



409



410



411



412



413



414



415



416



417



418



419



420



421



422



423



424



425



426



427



428



429



430



431



432



433



434



435



436



437



438



439



440



441



442



443



444



445



446



447



448



449



450



451



452



453



454



455



456



457



458



459



460



461



462



463



464



465



466



467



468



469



470



471



472



473



474



475



476



477



478



479



480



481



482



483



484



485



486



487



488



489



490



491



492



493



494



495



496



497



498



499






Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2v9dB_



100.0 57 PDB header:lyase
Chain: B: PDB Molecule:yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to2 the dihydrodipicolinic acid synthase family from e. coli3 k12
2c3fluD_



100.0 32 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from the pathogen2 neisseria meningitidis
3c3g0sA_



100.0 28 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from salmonella typhimurium lt2
4d2a6na1



100.0 29 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
5d1xxxa1



100.0 26 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
6d1o5ka_



100.0 29 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
7c3si9B_



100.0 31 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from bartonella2 henselae
8d1f74a_



100.0 26 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
9c3pueA_



100.0 31 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of the complex of dhydrodipicolinate synthase from2 acinetobacter baumannii with lysine at 2.6a resolution
10c3bi8A_



100.0 24 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of dihydrodipicolinate synthase from clostridium2 botulinum
11d1xkya1



100.0 28 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
12c3noeA_



100.0 31 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from pseudomonas2 aeruginosa
13c3n2xB_



100.0 57 PDB header:lyase
Chain: B: PDB Molecule:uncharacterized protein yage;
PDBTitle: crystal structure of yage, a prophage protein belonging to the2 dihydrodipicolinic acid synthase family from e. coli k12 in complex3 with pyruvate
14c3cprB_



100.0 29 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthetase;
PDBTitle: the crystal structure of corynebacterium glutamicum2 dihydrodipicolinate synthase to 2.2 a resolution
15c2r8wB_



100.0 25 PDB header:lyase
Chain: B: PDB Molecule:agr_c_1641p;
PDBTitle: the crystal structure of dihydrodipicolinate synthase (atu0899) from2 agrobacterium tumefaciens str. c58
16d1hl2a_



100.0 25 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
17c2yxgD_



100.0 31 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihyrodipicolinate synthase (dapa)
18c3s5oA_



100.0 25 PDB header:lyase
Chain: A: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase, mitochondrial;
PDBTitle: crystal structure of human 4-hydroxy-2-oxoglutarate aldolase bound to2 pyruvate
19c2ehhE_



100.0 30 PDB header:lyase
Chain: E: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 aquifex aeolicus
20c3eb2A_



100.0 31 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 2.0a resolution
21c2vc6A_



not modelled 100.0 29 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of mosa from s. meliloti with pyruvate bound
22c3lciA_



not modelled 100.0 25 PDB header:lyase
Chain: A: PDB Molecule:n-acetylneuraminate lyase;
PDBTitle: the d-sialic acid aldolase mutant v251w
23c3na8A_



not modelled 100.0 25 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthetase;
PDBTitle: crystal structure of a putative dihydrodipicolinate synthetase from2 pseudomonas aeruginosa
24c3h5dD_



not modelled 100.0 26 PDB header:lyase
Chain: D: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: dihydrodipicolinate synthase from drug-resistant streptococcus2 pneumoniae
25c2rfgB_



not modelled 100.0 30 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from hahella2 chejuensis at 1.5a resolution
26c3lerA_



not modelled 100.0 27 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 campylobacter jejuni subsp. jejuni nctc 11168
27c3daqB_



not modelled 100.0 26 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from methicillin-2 resistant staphylococcus aureus
28c3fkkA_



not modelled 100.0 23 PDB header:lyase
Chain: A: PDB Molecule:l-2-keto-3-deoxyarabonate dehydratase;
PDBTitle: structure of l-2-keto-3-deoxyarabonate dehydratase
29c3e96B_



not modelled 100.0 22 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 bacillus clausii
30c3d0cB_



not modelled 100.0 22 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 oceanobacillus iheyensis at 1.9 a resolution
31c3dz1A_



not modelled 100.0 20 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from2 rhodopseudomonas palustris at 1.87a resolution
32d1w3ia_



not modelled 100.0 26 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
33c2r94B_



not modelled 100.0 28 PDB header:lyase
Chain: B: PDB Molecule:2-keto-3-deoxy-(6-phospho-)gluconate aldolase;
PDBTitle: crystal structure of kd(p)ga from t.tenax
34c3qfeB_



not modelled 100.0 29 PDB header:lyase
Chain: B: PDB Molecule:putative dihydrodipicolinate synthase family protein;
PDBTitle: crystal structures of a putative dihydrodipicolinate synthase family2 protein from coccidioides immitis
35c2nuxB_



not modelled 100.0 25 PDB header:lyase
Chain: B: PDB Molecule:2-keto-3-deoxygluconate/2-keto-3-deoxy-6-phospho gluconate
PDBTitle: 2-keto-3-deoxygluconate aldolase from sulfolobus acidocaldarius,2 native structure in p6522 at 2.5 a resolution
36c3b4uB_



not modelled 100.0 23 PDB header:lyase
Chain: B: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: crystal structure of dihydrodipicolinate synthase from agrobacterium2 tumefaciens str. c58
37c2hmcA_



not modelled 100.0 22 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: the crystal structure of dihydrodipicolinate synthase dapa from2 agrobacterium tumefaciens
38c2pcqA_



not modelled 100.0 33 PDB header:lyase
Chain: A: PDB Molecule:putative dihydrodipicolinate synthase;
PDBTitle: crystal structure of putative dihydrodipicolinate synthase (ttha0737)2 from thermus thermophilus hb8
39c3lyeA_



not modelled 98.2 13 PDB header:hydrolase
Chain: A: PDB Molecule:oxaloacetate acetyl hydrolase;
PDBTitle: crystal structure of oxaloacetate acetylhydrolase
40d1muma_



not modelled 98.2 13 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
41d1ujqa_



not modelled 98.0 12 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
42c2ze3A_



not modelled 98.0 18 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
43c3ih1A_



not modelled 97.9 12 PDB header:lyase
Chain: A: PDB Molecule:methylisocitrate lyase;
PDBTitle: crystal structure of carboxyvinyl-carboxyphosphonate phosphorylmutase2 from bacillus anthracis
44c3eooL_



not modelled 97.9 14 PDB header:lyase
Chain: L: PDB Molecule:methylisocitrate lyase;
PDBTitle: 2.9a crystal structure of methyl-isocitrate lyase from2 burkholderia pseudomallei
45c1zlpA_



not modelled 97.8 16 PDB header:lyase
Chain: A: PDB Molecule:petal death protein;
PDBTitle: petal death protein psr132 with cysteine-linked glutaraldehyde forming2 a thiohemiacetal adduct
46c3fa4D_



not modelled 97.7 14 PDB header:lyase
Chain: D: PDB Molecule:2,3-dimethylmalate lyase;
PDBTitle: crystal structure of 2,3-dimethylmalate lyase, a pep mutase/isocitrate2 lyase superfamily member, triclinic crystal form
47c3b8iF_



not modelled 97.7 17 PDB header:lyase
Chain: F: PDB Molecule:pa4872 oxaloacetate decarboxylase;
PDBTitle: crystal structure of oxaloacetate decarboxylase from pseudomonas2 aeruginosa (pa4872) in complex with oxalate and mg2+.
48c2qiwA_



not modelled 97.6 13 PDB header:transferase
Chain: A: PDB Molecule:pep phosphonomutase;
PDBTitle: crystal structure of a putative phosphoenolpyruvate phosphonomutase2 (ncgl1015, cgl1060) from corynebacterium glutamicum atcc 13032 at3 1.80 a resolution
49d1s2wa_



not modelled 97.6 13 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
50c2hjpA_



not modelled 97.5 17 PDB header:hydrolase
Chain: A: PDB Molecule:phosphonopyruvate hydrolase;
PDBTitle: crystal structure of phosphonopyruvate hydrolase complex with2 phosphonopyruvate and mg++
51d1svda1



not modelled 97.4 19 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
52d1xcfa_



not modelled 97.4 15 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
53d1ps9a1



not modelled 97.3 18 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
54c3gr7A_



not modelled 97.3 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
55c2h90A_



not modelled 97.3 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:xenobiotic reductase a;
PDBTitle: xenobiotic reductase a in complex with coumarin
56c3ez4B_



not modelled 97.2 24 PDB header:transferase
Chain: B: PDB Molecule:3-methyl-2-oxobutanoate hydroxymethyltransferase;
PDBTitle: crystal structure of 3-methyl-2-oxobutanoate2 hydroxymethyltransferase from burkholderia pseudomallei
57c1ps9A_



not modelled 97.1 19 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
58d2d69a1



not modelled 97.1 13 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
59d1ykwa1



not modelled 97.0 13 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
60d1ej7l1



not modelled 97.0 14 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
61d1oy0a_



not modelled 97.0 22 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Ketopantoate hydroxymethyltransferase PanB
62d1geqa_



not modelled 97.0 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
63c1rcxH_



not modelled 97.0 14 PDB header:lyase (carbon-carbon)
Chain: H: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase;
PDBTitle: non-activated spinach rubisco in complex with its substrate2 ribulose-1,5-bisphosphate
64c3bolB_



not modelled 96.9 16 PDB header:transferase
Chain: B: PDB Molecule:5-methyltetrahydrofolate s-homocysteine
PDBTitle: cobalamin-dependent methionine synthase (1-566) from2 thermotoga maritima complexed with zn2+
65c3navB_



not modelled 96.9 17 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961
66c2ekcA_



not modelled 96.8 16 PDB header:lyase
Chain: A: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: structural study of project id aq_1548 from aquifex aeolicus vf5
67c3nwrA_



not modelled 96.8 15 PDB header:lyase
Chain: A: PDB Molecule:a rubisco-like protein;
PDBTitle: crystal structure of a rubisco-like protein from burkholderia fungorum
68d1piia2



not modelled 96.8 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
69c2qygC_



not modelled 96.7 17 PDB header:unknown function
Chain: C: PDB Molecule:ribulose bisphosphate carboxylase-like protein 2;
PDBTitle: crystal structure of a rubisco-like protein rlp2 from rhodopseudomonas2 palustris
70d1yxya1



not modelled 96.7 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
71d1z41a1



not modelled 96.7 13 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
72c3hf3A_



not modelled 96.7 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:chromate reductase;
PDBTitle: old yellow enzyme from thermus scotoductus sa-01
73d8ruca1



not modelled 96.7 15 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
74c2qjhH_



not modelled 96.7 17 PDB header:lyase
Chain: H: PDB Molecule:putative aldolase mj0400;
PDBTitle: m. jannaschii adh synthase covalently bound to2 dihydroxyacetone phosphate
75c3fk4A_



not modelled 96.7 18 PDB header:isomerase
Chain: A: PDB Molecule:rubisco-like protein;
PDBTitle: crystal structure of rubisco-like protein from bacillus2 cereus atcc 14579
76d1f76a_



not modelled 96.7 23 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
77c3irsB_



not modelled 96.7 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:uncharacterized protein bb4693;
PDBTitle: crystal structure of uncharacterized tim-barrel protein bb4693 from2 bordetella bronchiseptica
78c1telA_



not modelled 96.6 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:ribulose bisphosphate carboxylase, large subunit;
PDBTitle: crystal structure of a rubisco-like protein from chlorobium2 tepidum
79d1tv5a1



not modelled 96.6 17 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
80c1tv5A_



not modelled 96.6 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:dihydroorotate dehydrogenase homolog, mitochondrial;
PDBTitle: plasmodium falciparum dihydroorotate dehydrogenase with a bound2 inhibitor
81d1geha1



not modelled 96.6 11 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
82d1f61a_



not modelled 96.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Phosphoenolpyruvate mutase/Isocitrate lyase-like
83c3thaB_



not modelled 96.6 13 PDB header:lyase
Chain: B: PDB Molecule:tryptophan synthase alpha chain;
PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni.
84d1qopa_



not modelled 96.5 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
85d1bxna1



not modelled 96.5 16 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
86c2rduA_



not modelled 96.5 20 PDB header:oxidoreductase
Chain: A: PDB Molecule:hydroxyacid oxidase 1;
PDBTitle: crystal structure of human glycolate oxidase in complex with2 glyoxylate
87c2d69B_



not modelled 96.5 16 PDB header:lyase
Chain: B: PDB Molecule:ribulose bisphosphate carboxylase;
PDBTitle: crystal structure of the complex of sulfate ion and octameric2 ribulose-1,5-bisphosphate carboxylase/oxygenase (rubisco) from3 pyrococcus horikoshii ot3 (form-2 crystal)
88d3bofa2



not modelled 96.5 17 Fold:TIM beta/alpha-barrel
Superfamily:Homocysteine S-methyltransferase
Family:Homocysteine S-methyltransferase
89d1rd5a_



not modelled 96.5 18 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
90c2cdh1_



not modelled 96.5 21 PDB header:transferase
Chain: 1: PDB Molecule:enoyl reductase;
PDBTitle: architecture of the thermomyces lanuginosus fungal fatty2 acid synthase at 5 angstrom resolution.
91c2e77B_



not modelled 96.4 20 PDB header:oxidoreductase
Chain: B: PDB Molecule:lactate oxidase;
PDBTitle: crystal structure of l-lactate oxidase with pyruvate complex
92d1wdda1



not modelled 96.4 15 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
93d2f6ka1



not modelled 96.4 16 Fold:TIM beta/alpha-barrel
Superfamily:Metallo-dependent hydrolases
Family:PP1699/LP2961-like
94c1gehE_



not modelled 96.4 11 PDB header:lyase
Chain: E: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase;
PDBTitle: crystal structure of archaeal rubisco (ribulose 1,5-bisphosphate2 carboxylase/oxygenase)
95d1gvfa_



not modelled 96.3 18 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class II FBP aldolase
96d1j5ta_



not modelled 96.3 17 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
97c1jcnA_



not modelled 96.2 22 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine monophosphate dehydrogenase i;
PDBTitle: binary complex of human type-i inosine monophosphate dehydrogenase2 with 6-cl-imp
98d1d3ga_



not modelled 96.2 20 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
99c1djnB_



not modelled 96.2 16 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)
100d1rbla1



not modelled 96.1 16 Fold:TIM beta/alpha-barrel
Superfamily:RuBisCo, C-terminal domain
Family:RuBisCo, large subunit, C-terminal domain
101d1goxa_



not modelled 96.0 26 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
102d1rpxa_



not modelled 95.9 10 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:D-ribulose-5-phosphate 3-epimerase
103d1m3ua_



not modelled 95.9 26 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Ketopantoate hydroxymethyltransferase PanB
104c1rldB_



not modelled 95.9 14 PDB header:lyase(carbon-carbon)
Chain: B: PDB Molecule:ribulose 1,5 bisphosphate carboxylase/oxygenase (large
PDBTitle: solid-state phase transition in the crystal structure of ribulose 1,5-2 biphosphate carboxylase(slash)oxygenase
105d1tb3a1



not modelled 95.9 24 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
106d1gwja_



not modelled 95.9 14 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
107c2c3zA_



not modelled 95.8 14 PDB header:lyase
Chain: A: PDB Molecule:indole-3-glycerol phosphate synthase;
PDBTitle: crystal structure of a truncated variant of indole-3-2 glycerol phosphate synthase from sulfolobus solfataricus
108c1zfjA_



not modelled 95.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine monophosphate dehydrogenase;
PDBTitle: inosine monophosphate dehydrogenase (impdh; ec 1.1.1.205) from2 streptococcus pyogenes
109c2z6jB_



not modelled 95.7 12 PDB header:oxidoreductase
Chain: B: PDB Molecule:trans-2-enoyl-acp reductase ii;
PDBTitle: crystal structure of s. pneumoniae enoyl-acyl carrier2 protein reductase (fabk) in complex with an inhibitor
110c3qfwB_



not modelled 95.7 16 PDB header:lyase
Chain: B: PDB Molecule:ribulose-1,5-bisphosphate carboxylase/oxygenase large
PDBTitle: crystal structure of rubisco-like protein from rhodopseudomonas2 palustris
111d1jcna1



not modelled 95.6 22 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
112c2ftpA_



not modelled 95.6 10 PDB header:lyase
Chain: A: PDB Molecule:hydroxymethylglutaryl-coa lyase;
PDBTitle: crystal structure of hydroxymethylglutaryl-coa lyase from pseudomonas2 aeruginosa
113c2htmB_



not modelled 95.6 15 PDB header:biosynthetic protein
Chain: B: PDB Molecule:thiazole biosynthesis protein thig;
PDBTitle: crystal structure of ttha0676 from thermus thermophilus hb8
114d1i4na_



not modelled 95.5 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
115d1vhna_



not modelled 95.5 16 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
116c2cw6B_



not modelled 95.5 12 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
117d1juba_



not modelled 95.5 11 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
118c1kbiB_



not modelled 95.5 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:cytochrome b2;
PDBTitle: crystallographic study of the recombinant flavin-binding domain of2 baker's yeast flavocytochrome b2: comparison with the intact wild-3 type enzyme
119c3gndC_



not modelled 95.5 15 PDB header:lyase
Chain: C: PDB Molecule:aldolase lsrf;
PDBTitle: crystal structure of e. coli lsrf in complex with ribulose-5-phosphate
120c3nurA_



not modelled 95.4 16 PDB header:hydrolase
Chain: A: PDB Molecule:amidohydrolase;
PDBTitle: crystal structure of a putative amidohydrolase from staphylococcus2 aureus

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