Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP37177
DateThu Jan 5 11:54:54 GMT 2012
Unique Job ID5516dd95ae83d8b9

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2hwgA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of phosphorylated enzyme i of the2 phosphoenolpyruvate:sugar phosphotransferase system
Confidence and coverage
Confidence:100.0% Coverage: 76%
566 residues ( 76% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
730 residues ( 98%) could be modelled at >90% confidence using multiple-templates.
You may wish to try resubmitting your sequence in "intensive" mode to model more of your sequence.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

   1........10.........20.........30.........40.........50.........60
Sequence  MLTRLREIVEKVASAPRLNEALNILVTDICLAMDTEVCSVYLADHDRRCYYLMATRGLKK
Secondary structure 













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Disorder  ?










???












































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   .........70.........80.........90.........100.........110.........120
Sequence  PRGRTVTLAFDEGIVGLVGRLAEPINLADAQKHPSFKYIPSVKEERFRAFLGVPIIQRRQ
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Disorder 

??
?

?




























?
???
















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   .........130.........140.........150.........160.........170.........180
Sequence  LLGVLVVQQRELRQYDESEESFLVTLATQMAAILSQSQLTALFGQYRQTRIRALPAAPGV
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???


















?????????????????????????

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   .........190.........200.........210.........220.........230.........240
Sequence  AIAEGWQDATLPLMEQVYQASTLDPALERERLTGALEEAANEFRRYSKRFAAGAQKETAA
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??????


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   .........250.........260.........270.........280.........290.........300
Sequence  IFDLYSHLLSDTRLRRELFAEVDKGSVAEWAVKTVIEKFAEQFAALSDNYLKERAGDLRA
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???????







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   .........310.........320.........330.........340.........350.........360
Sequence  LGQRLLFHLDDANQGPNAWPERFILVADELSATTLAELPQDRLVGVVVRDGAANSHAAIM
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???????









































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   .........370.........380.........390.........400.........410.........420
Sequence  VRALGIPTVMGADIQPSVLHRRTLIVDGYRGELLVDPEPVLLQEYQRLISEEIELSRLAE
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   .........430.........440.........450.........460.........470.........480
Sequence  DDVNLPAQLKSGERIKVMLNAGLSPEHEEKLGSRIDGIGLYRTEIPFMLQSGFPSEEEQV
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?








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   .........490.........500.........510.........520.........530.........540
Sequence  AQYQGMLQMFNDKPVTLRTLDVGADKQLPYMPISEENPCLGWRGIRITLDQPEIFLIQVR
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   .........550.........560.........570.........580.........590.........600
Sequence  AMLRANAATGNLNILLPMVTSLDEVDEARRLIERAGREVEEMIGYEIPKPRIGIMLEVPS
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??????













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   .........610.........620.........630.........640.........650.........660
Sequence  MVFMLPHLAKRVDFISVGTNDLTQYILAVDRNNTRVANIYDSLHPAMLRALAMIAREAEI
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   .........670.........680.........690.........700.........710.........720
Sequence  HGIDLRLCGEMAGDPMCVAILIGLGYRHLSMNGRSVARAKYLLRRIDYAEAENLAQRSLE
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   .........730.........740........
Sequence  AQLATEVRHQVAAFMERRGMGGLIRGGL
Secondary structure 













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Disorder 




















???????
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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 2hwg chain A

3D model

Region: 171 - 738
Aligned: 566
Modelled: 568
Confidence: 100.0%
Identity: 32%
PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of phosphorylated enzyme i of the2 phosphoenolpyruvate:sugar phosphotransferase system

Phyre2

PDB 2hro chain A

3D model

Region: 170 - 736
Aligned: 549
Modelled: 567
Confidence: 100.0%
Identity: 32%
PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the full-lenght enzyme i of the pts system from2 staphylococcus carnosus

Phyre2

PDB 1h6z chain A

3D model

Region: 315 - 713
Aligned: 382
Modelled: 399
Confidence: 100.0%
Identity: 26%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: 3.0 a resolution crystal structure of glycosomal pyruvate2 phosphate dikinase from trypanosoma brucei

Phyre2

PDB 2bg5 chain C

3D model

Region: 417 - 737
Aligned: 320
Modelled: 321
Confidence: 100.0%
Identity: 38%
PDB header:transferase
Chain: C: PDB Molecule:phosphoenolpyruvate-protein kinase;
PDBTitle: crystal structure of the phosphoenolpyruvate-binding enzyme2 i-domain from the thermoanaerobacter tengcongensis pep:3 sugar phosphotransferase system (pts)

Phyre2

PDB 1kbl chain A

3D model

Region: 320 - 709
Aligned: 373
Modelled: 390
Confidence: 100.0%
Identity: 25%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: pyruvate phosphate dikinase

Phyre2

PDB 1vbh chain A

3D model

Region: 318 - 707
Aligned: 371
Modelled: 377
Confidence: 100.0%
Identity: 26%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate,orthophosphate dikinase;
PDBTitle: pyruvate phosphate dikinase with bound mg-pep from maize

Phyre2

PDB 2ols chain A

3D model

Region: 309 - 705
Aligned: 354
Modelled: 364
Confidence: 100.0%
Identity: 25%
PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate synthase;
PDBTitle: the crystal structure of the phosphoenolpyruvate synthase from2 neisseria meningitidis

Phyre2

PDB 1vbg chain A domain 1

3D model

Region: 431 - 707
Aligned: 275
Modelled: 277
Confidence: 100.0%
Identity: 28%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate phosphate dikinase, C-terminal domain

Phyre2

PDB 1h6z chain A domain 1

3D model

Region: 417 - 713
Aligned: 293
Modelled: 297
Confidence: 100.0%
Identity: 26%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate phosphate dikinase, C-terminal domain

Phyre2

PDB 1kbl chain A domain 1

3D model

Region: 433 - 705
Aligned: 271
Modelled: 273
Confidence: 100.0%
Identity: 27%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: Pyruvate phosphate dikinase, C-terminal domain

Phyre2

PDB 1eza chain A

3D model

Region: 171 - 425
Aligned: 255
Modelled: 255
Confidence: 100.0%
Identity: 26%
PDB header:phosphotransferase
Chain: A: PDB Molecule:enzyme i;
PDBTitle: amino terminal domain of enzyme i from escherichia coli nmr,2 restrained regularized mean structure

Phyre2

PDB 3trc chain A

3D model

Region: 2 - 163
Aligned: 162
Modelled: 162
Confidence: 99.9%
Identity: 42%
PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the gaf domain from a phosphoenolpyruvate-protein2 phosphotransferase (ptsp) from coxiella burnetii

Phyre2

PDB 1dxe chain A

3D model

Region: 430 - 706
Aligned: 211
Modelled: 245
Confidence: 99.9%
Identity: 18%
Fold: TIM beta/alpha-barrel
Superfamily: Phosphoenolpyruvate/pyruvate domain
Family: HpcH/HpaI aldolase

Phyre2

PDB 1zym chain A domain 2

3D model

Region: 307 - 415
Aligned: 109
Modelled: 109
Confidence: 99.9%
Identity: 23%
Fold: The "swivelling" beta/beta/alpha domain
Superfamily: Phosphohistidine domain
Family: N-terminal domain of enzyme I of the PEP:sugar phosphotransferase system

Phyre2

PDB 3ci6 chain B

3D model

Region: 2 - 164
Aligned: 161
Modelled: 163
Confidence: 99.9%
Identity: 39%
PDB header:transferase
Chain: B: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: crystal structure of the gaf domain from acinetobacter2 phosphoenolpyruvate-protein phosphotransferase

Phyre2

PDB 3qz6 chain A

3D model

Region: 441 - 706
Aligned: 202
Modelled: 231
Confidence: 99.9%
Identity: 19%
PDB header:lyase
Chain: A: PDB Molecule:hpch/hpai aldolase;
PDBTitle: the crystal structure of hpch/hpai aldolase from desulfitobacterium2 hafniense dcb-2

Phyre2

PDB 2o9c chain A domain 1

3D model

Region: 3 - 159
Aligned: 157
Modelled: 157
Confidence: 99.8%
Identity: 11%
Fold: Profilin-like
Superfamily: GAF domain-like
Family: GAF domain

Phyre2

PDB 3mmh chain A

3D model

Region: 2 - 159
Aligned: 150
Modelled: 158
Confidence: 99.8%
Identity: 21%
PDB header:oxidoreductase
Chain: A: PDB Molecule:methionine-r-sulfoxide reductase;
PDBTitle: x-ray structure of free methionine-r-sulfoxide reductase from2 neisseria meningitidis in complex with its substrate

Phyre2

PDB 2vea chain A domain 1

3D model

Region: 3 - 164
Aligned: 162
Modelled: 162
Confidence: 99.8%
Identity: 10%
Fold: Profilin-like
Superfamily: GAF domain-like
Family: GAF domain

Phyre2

PDB 3p01 chain C

3D model

Region: 2 - 160
Aligned: 155
Modelled: 154
Confidence: 99.8%
Identity: 16%
PDB header:signaling protein
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of two-component response regulator from nostoc sp.2 pcc 7120

Phyre2
1

c2hwgA_
2

c2hroA_
3

c1h6zA_
4

c2bg5C_
5

c1kblA_
6

c1vbhA_
7

c2olsA_
8

d1vbga1
9

d1h6za1
10

d1kbla1
11

c1ezaA_
12

c3trcA_
13

d1dxea_
14

d1zyma2
15

c3ci6B_
16

c3qz6A_
17

d2o9ca1
18

c3mmhA_
19

d2veaa1
20

c3p01C_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2hwgA_



100.0 32 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of phosphorylated enzyme i of the2 phosphoenolpyruvate:sugar phosphotransferase system
2c2hroA_



100.0 32 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the full-lenght enzyme i of the pts system from2 staphylococcus carnosus
3c1h6zA_



100.0 26 PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: 3.0 a resolution crystal structure of glycosomal pyruvate2 phosphate dikinase from trypanosoma brucei
4c2bg5C_



100.0 38 PDB header:transferase
Chain: C: PDB Molecule:phosphoenolpyruvate-protein kinase;
PDBTitle: crystal structure of the phosphoenolpyruvate-binding enzyme2 i-domain from the thermoanaerobacter tengcongensis pep:3 sugar phosphotransferase system (pts)
5c1kblA_



100.0 25 PDB header:transferase
Chain: A: PDB Molecule:pyruvate phosphate dikinase;
PDBTitle: pyruvate phosphate dikinase
6c1vbhA_



100.0 26 PDB header:transferase
Chain: A: PDB Molecule:pyruvate,orthophosphate dikinase;
PDBTitle: pyruvate phosphate dikinase with bound mg-pep from maize
7c2olsA_



100.0 25 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate synthase;
PDBTitle: the crystal structure of the phosphoenolpyruvate synthase from2 neisseria meningitidis
8d1vbga1



100.0 28 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
9d1h6za1



100.0 26 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
10d1kbla1



100.0 27 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate phosphate dikinase, C-terminal domain
11c1ezaA_



100.0 26 PDB header:phosphotransferase
Chain: A: PDB Molecule:enzyme i;
PDBTitle: amino terminal domain of enzyme i from escherichia coli nmr,2 restrained regularized mean structure
12c3trcA_



99.9 42 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the gaf domain from a phosphoenolpyruvate-protein2 phosphotransferase (ptsp) from coxiella burnetii
13d1dxea_



99.9 18 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
14d1zyma2



99.9 23 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:Phosphohistidine domain
Family:N-terminal domain of enzyme I of the PEP:sugar phosphotransferase system
15c3ci6B_



99.9 39 PDB header:transferase
Chain: B: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: crystal structure of the gaf domain from acinetobacter2 phosphoenolpyruvate-protein phosphotransferase
16c3qz6A_



99.9 19 PDB header:lyase
Chain: A: PDB Molecule:hpch/hpai aldolase;
PDBTitle: the crystal structure of hpch/hpai aldolase from desulfitobacterium2 hafniense dcb-2
17d2o9ca1



99.8 11 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
18c3mmhA_



99.8 21 PDB header:oxidoreductase
Chain: A: PDB Molecule:methionine-r-sulfoxide reductase;
PDBTitle: x-ray structure of free methionine-r-sulfoxide reductase from2 neisseria meningitidis in complex with its substrate
19d2veaa1



99.8 10 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
20c3p01C_



99.8 16 PDB header:signaling protein
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of two-component response regulator from nostoc sp.2 pcc 7120
21d1izca_



not modelled 99.8 19 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
22c1izcA_



not modelled 99.8 19 PDB header:lyase
Chain: A: PDB Molecule:macrophomate synthase intermolecular diels-alderase;
PDBTitle: crystal structure analysis of macrophomate synthase
23c3k2nB_



not modelled 99.8 14 PDB header:transcription regulator
Chain: B: PDB Molecule:sigma-54-dependent transcriptional regulator;
PDBTitle: the crystal structure of sigma-54-dependent transcriptional2 regulator domain from chlorobium tepidum tls
24c3p01A_



not modelled 99.8 16 PDB header:signaling protein
Chain: A: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of two-component response regulator from nostoc sp.2 pcc 7120
25d1zyma1



not modelled 99.8 29 Fold:SAM domain-like
Superfamily:Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
Family:Enzyme I of the PEP:sugar phosphotransferase system HPr-binding (sub)domain
26c2zmfA_



not modelled 99.8 20 PDB header:hydrolase
Chain: A: PDB Molecule:camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase
PDBTitle: crystal structure of the c-terminal gaf domain of human2 phosphodiesterase 10a
27c3oovA_



not modelled 99.8 18 PDB header:signaling protein
Chain: A: PDB Molecule:methyl-accepting chemotaxis protein, putative;
PDBTitle: crystal structure of a methyl-accepting chemotaxis protein, residues2 122 to 287
28d2oola1



not modelled 99.8 12 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
29c2qybA_



not modelled 99.8 16 PDB header:membrane protein
Chain: A: PDB Molecule:membrane protein, putative;
PDBTitle: crystal structure of the gaf domain region of putative membrane2 protein from geobacter sulfurreducens pca
30d1vhma_



not modelled 99.8 15 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
31c2v5jB_



not modelled 99.8 21 PDB header:lyase
Chain: B: PDB Molecule:2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase;
PDBTitle: apo class ii aldolase hpch
32c1vhmB_



not modelled 99.8 14 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein yebr;
PDBTitle: crystal structure of an hypothetical protein
33c3e0yA_



not modelled 99.8 26 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved domain protein;
PDBTitle: the crystal structure of a conserved domain from a protein of2 geobacter sulfurreducens pca
34c3hcyB_



not modelled 99.8 19 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative two-component sensor histidine kinase protein;
PDBTitle: the crystal structure of the domain of putative two-component sensor2 histidine kinase protein from sinorhizobium meliloti 1021
35c2vjwA_



not modelled 99.8 13 PDB header:hydrolase
Chain: A: PDB Molecule:gaf family protein;
PDBTitle: crystal structure of the second gaf domain of devs from2 mycobacterium smegmatis
36c3eeaB_



not modelled 99.8 19 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:gaf domain/hd domain protein;
PDBTitle: the crystal structure of the gaf domain/hd domain protein2 from geobacter sulfurreducens
37c2vwtA_



not modelled 99.8 17 PDB header:lyase
Chain: A: PDB Molecule:yfau, 2-keto-3-deoxy sugar aldolase;
PDBTitle: crystal structure of yfau, a metal ion dependent class ii2 aldolase from escherichia coli k12 - mg-pyruvate product3 complex
38c3o5yA_



not modelled 99.8 13 PDB header:transcription regulator
Chain: A: PDB Molecule:sensor protein;
PDBTitle: the crystal structure of the gaf domain of a two-component sensor2 histidine kinase from bacillus halodurans to 2.45a
39c1mc0A_



not modelled 99.8 19 PDB header:hydrolase
Chain: A: PDB Molecule:3',5'-cyclic nucleotide phosphodiesterase 2a;
PDBTitle: regulatory segment of mouse 3',5'-cyclic nucleotide phosphodiesterase2 2a, containing the gaf a and gaf b domains
40c3ksiA_



not modelled 99.8 15 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: structure of frmsr of staphylococcus aureus (complex with 2-propanol)
41c2w3gA_



not modelled 99.7 22 PDB header:transferase
Chain: A: PDB Molecule:two component sensor histidine kinase devs (gaf
PDBTitle: air-oxidized structure of the first gaf domain of2 mycobacterium tuberculosis doss
42c3dbaB_



not modelled 99.7 14 PDB header:hydrolase
Chain: B: PDB Molecule:cone cgmp-specific 3',5'-cyclic phosphodiesterase subunit
PDBTitle: crystal structure of the cgmp-bound gaf a domain from the2 photoreceptor phosphodiesterase 6c
43c3ibjB_



not modelled 99.7 13 PDB header:hydrolase
Chain: B: PDB Molecule:cgmp-dependent 3',5'-cyclic phosphodiesterase;
PDBTitle: x-ray structure of pde2a
44c2lb5A_



not modelled 99.7 26 PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase;
PDBTitle: refined structural basis for the photoconversion of a phytochrome to2 the activated far-red light-absorbing form
45c3mf0A_



not modelled 99.7 17 PDB header:hydrolase
Chain: A: PDB Molecule:cgmp-specific 3',5'-cyclic phosphodiesterase;
PDBTitle: crystal structure of pde5a gaf domain (89-518)
46d3c2wa1



not modelled 99.7 12 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
47c1ykdB_



not modelled 99.7 19 PDB header:lyase
Chain: B: PDB Molecule:adenylate cyclase;
PDBTitle: crystal structure of the tandem gaf domains from a cyanobacterial2 adenylyl cyclase: novel modes of ligand-binding and dimerization
48d2k2na1



not modelled 99.7 23 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
49c2k31A_



not modelled 99.6 20 PDB header:hydrolase
Chain: A: PDB Molecule:phosphodiesterase 5a, cgmp-specific;
PDBTitle: solution structure of cgmp-binding gaf domain of2 phosphodiesterase 5
50d1h6za2



not modelled 99.6 24 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:Phosphohistidine domain
Family:Pyruvate phosphate dikinase, central domain
51d1vbga2



not modelled 99.6 28 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:Phosphohistidine domain
Family:Pyruvate phosphate dikinase, central domain
52d1mc0a1



not modelled 99.6 13 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
53c2oolA_



not modelled 99.6 13 PDB header:signaling protein
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of the chromophore-binding domain of an unusual2 bacteriophytochrome rpbphp3 from r. palustris
54d1kbla2



not modelled 99.6 27 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:Phosphohistidine domain
Family:Pyruvate phosphate dikinase, central domain
55d1mc0a2



not modelled 99.6 21 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
56c3c2wB_



not modelled 99.6 13 PDB header:signaling protein
Chain: B: PDB Molecule:bacteriophytochrome;
PDBTitle: crystal structure of the photosensory core domain of p.2 aeruginosa bacteriophytochrome pabphp in the pfr state
57d1f5ma_



not modelled 99.6 17 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
58c2o9bA_



not modelled 99.5 12 PDB header:transferase
Chain: A: PDB Molecule:bacteriophytochrome;
PDBTitle: crystal structure of bacteriophytochrome chromophore binding domain
59c2veaA_



not modelled 99.5 10 PDB header:transferase
Chain: A: PDB Molecule:phytochrome-like protein cph1;
PDBTitle: the complete sensory module of the cyanobacterial2 phytochrome cph1 in the pr-state.
60c2xssB_



not modelled 99.4 16 PDB header:hydrolase
Chain: B: PDB Molecule:cgmp-specific 3', 5'-cyclic phosphodiesterase;
PDBTitle: crystal structure of gafb from the human phosphodiesterase 5
61c3e98B_



not modelled 99.4 18 PDB header:unknown function
Chain: B: PDB Molecule:gaf domain of unknown function;
PDBTitle: crystal structure of a gaf domain containing protein that belongs to2 pfam duf484 family (pa5279) from pseudomonas aeruginosa at 2.43 a3 resolution
62c3qqwC_



not modelled 99.3 16 PDB header:lyase
Chain: C: PDB Molecule:putative citrate lyase;
PDBTitle: crystal structure of a hypothetical lyase (reut_b4148) from ralstonia2 eutropha jmp134 at 2.44 a resolution
63c1sgjB_



not modelled 99.2 16 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase, beta subunit;
PDBTitle: crystal structure of citrate lyase beta subunit
64d2g50a2



not modelled 99.2 17 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
65d1sgja_



not modelled 99.1 16 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
66d1e0ta2



not modelled 99.1 13 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
67d1a3xa2



not modelled 99.1 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
68c3t07D_



not modelled 99.1 17 PDB header:transferase/transferase inhibitor
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of s. aureus pyruvate kinase in complex with a2 naturally occurring bis-indole alkaloid
69d1pkla2



not modelled 99.1 15 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
70d1liua2



not modelled 98.9 20 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:Pyruvate kinase
71c2e28A_



not modelled 98.9 24 PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure analysis of pyruvate kinase from bacillus2 stearothermophilus
72c3r4iB_



not modelled 98.8 23 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase;
PDBTitle: crystal structure of a citrate lyase (bxe_b2899) from burkholderia2 xenovorans lb400 at 2.24 a resolution
73c1u5vA_



not modelled 98.8 14 PDB header:lyase
Chain: A: PDB Molecule:cite;
PDBTitle: structure of cite complexed with triphosphate group of atp2 form mycobacterium tuberculosis
74d1u5ha_



not modelled 98.7 14 Fold:TIM beta/alpha-barrel
Superfamily:Phosphoenolpyruvate/pyruvate domain
Family:HpcH/HpaI aldolase
75c3qllB_



not modelled 98.6 15 PDB header:lyase
Chain: B: PDB Molecule:citrate lyase;
PDBTitle: crystal structure of ripc from yersinia pestis
76c3cuzA_



not modelled 98.2 14 PDB header:transferase
Chain: A: PDB Molecule:malate synthase a;
PDBTitle: atomic resolution structures of escherichia coli and2 bacillis anthracis malate synthase a: comparison with3 isoform g and implications for structure based drug design
77c2vgbB_



not modelled 98.1 21 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase isozymes r/l;
PDBTitle: human erythrocyte pyruvate kinase
78c3ma8A_



not modelled 98.0 15 PDB header:transferase
Chain: A: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of cgd1_2040, a pyruvate kinase from cryptosporidium2 parvum
79c2gx5B_



not modelled 98.0 14 PDB header:transcription
Chain: B: PDB Molecule:gtp-sensing transcriptional pleiotropic repressor cody;
PDBTitle: n-terminal gaf domain of transcriptional pleiotropic repressor cody
80c2w1rA_



not modelled 98.0 17 PDB header:transcription
Chain: A: PDB Molecule:stage v sporulation protein t;
PDBTitle: crystal structure of the c-terminal domain of b. subtilis2 spovt
81c3pugA_



not modelled 97.8 19 PDB header:transferase
Chain: A: PDB Molecule:malate synthase;
PDBTitle: haloferax volcanii malate synthase native at 3mm glyoxylate
82c1e0tD_



not modelled 97.5 15 PDB header:phosphotransferase
Chain: D: PDB Molecule:pyruvate kinase;
PDBTitle: r292d mutant of e. coli pyruvate kinase
83c2w1tB_



not modelled 97.5 17 PDB header:transcription
Chain: B: PDB Molecule:stage v sporulation protein t;
PDBTitle: crystal structure of b. subtilis spovt
84c3cuxA_



not modelled 97.4 14 PDB header:transferase
Chain: A: PDB Molecule:malate synthase;
PDBTitle: atomic resolution structures of escherichia coli and2 bacillis anthracis malate synthase a: comparison with3 isoform g and implications for structure based drug design
85c1a3wB_



not modelled 97.4 16 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from saccharomyces cerevisiae complexed with fbp, pg,2 mn2+ and k+
86c3e0vB_



not modelled 97.4 21 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from leishmania mexicana in2 complex with sulphate ions
87c1t5aB_



not modelled 97.4 18 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase, m2 isozyme;
PDBTitle: human pyruvate kinase m2
88c1pklB_



not modelled 97.4 21 PDB header:transferase
Chain: B: PDB Molecule:protein (pyruvate kinase);
PDBTitle: the structure of leishmania pyruvate kinase
89c1aqfB_



not modelled 97.3 19 PDB header:transferase
Chain: B: PDB Molecule:pyruvate kinase;
PDBTitle: pyruvate kinase from rabbit muscle with mg, k, and l-2 phospholactate
90c3eoeC_



not modelled 97.3 22 PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pyruvate kinase from toxoplasma gondii, 55.m00007
91d1d8ca_



not modelled 96.9 13 Fold:TIM beta/alpha-barrel
Superfamily:Malate synthase G
Family:Malate synthase G
92c2avxA_



not modelled 96.8 7 PDB header:transcription
Chain: A: PDB Molecule:regulatory protein sdia;
PDBTitle: solution structure of e coli sdia1-171
93c3khdC_



not modelled 96.8 14 PDB header:transferase
Chain: C: PDB Molecule:pyruvate kinase;
PDBTitle: crystal structure of pff1300w.
94c3qp1A_



not modelled 96.3 9 PDB header:transcription
Chain: A: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir ligand-binding domain bound to the native2 ligand c6-hsl
95c3qp5C_



not modelled 95.6 9 PDB header:transcription
Chain: C: PDB Molecule:cvir transcriptional regulator;
PDBTitle: crystal structure of cvir bound to antagonist chlorolactone (cl)
96d1l3la2



not modelled 94.2 13 Fold:Profilin-like
Superfamily:Pheromone-binding domain of LuxR-like quorum-sensing transcription factors
Family:Pheromone-binding domain of LuxR-like quorum-sensing transcription factors
97d1eepa_



not modelled 92.6 17 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
98c2a7rD_



not modelled 90.4 18 PDB header:oxidoreductase
Chain: D: PDB Molecule:gmp reductase 2;
PDBTitle: crystal structure of human guanosine monophosphate2 reductase 2 (gmpr2)
99c3odmE_



not modelled 89.9 13 PDB header:lyase
Chain: E: PDB Molecule:phosphoenolpyruvate carboxylase;
PDBTitle: archaeal-type phosphoenolpyruvate carboxylase
100d1vrda1



not modelled 88.2 18 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
101d1jr1a1



not modelled 87.3 16 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
102c2uv0G_



not modelled 87.3 14 PDB header:transcription
Chain: G: PDB Molecule:transcriptional activator protein lasr;
PDBTitle: structure of the p. aeruginosa lasr ligand-binding domain2 bound to its autoinducer
103c1h0mD_



not modelled 86.5 11 PDB header:transcription/dna
Chain: D: PDB Molecule:transcriptional activator protein trar;
PDBTitle: three-dimensional structure of the quorum sensing protein2 trar bound to its autoinducer and to its target dna
104c1vrdA_



not modelled 85.7 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine-5'-monophosphate dehydrogenase;
PDBTitle: crystal structure of inosine-5'-monophosphate dehydrogenase (tm1347)2 from thermotoga maritima at 2.18 a resolution
105d1j93a_



not modelled 85.1 14 Fold:TIM beta/alpha-barrel
Superfamily:UROD/MetE-like
Family:Uroporphyrinogen decarboxylase, UROD
106c3lciA_



not modelled 84.6 22 PDB header:lyase
Chain: A: PDB Molecule:n-acetylneuraminate lyase;
PDBTitle: the d-sialic acid aldolase mutant v251w
107c2vc6A_



not modelled 84.5 19 PDB header:lyase
Chain: A: PDB Molecule:dihydrodipicolinate synthase;
PDBTitle: structure of mosa from s. meliloti with pyruvate bound
108d1zfja1



not modelled 84.2 23 Fold:TIM beta/alpha-barrel
Superfamily:Inosine monophosphate dehydrogenase (IMPDH)
Family:Inosine monophosphate dehydrogenase (IMPDH)
109c3femB_



not modelled 84.0 9 PDB header:biosynthetic protein, transferase
Chain: B: PDB Molecule:pyridoxine biosynthesis protein snz1;
PDBTitle: structure of the synthase subunit pdx1.1 (snz1) of plp synthase from2 saccharomyces cerevisiae
110c2zbtB_



not modelled 84.0 19 PDB header:lyase
Chain: B: PDB Molecule:pyridoxal biosynthesis lyase pdxs;
PDBTitle: crystal structure of pyridoxine biosynthesis protein from thermus2 thermophilus hb8
111c2nv2U_



not modelled 83.3 15 PDB header:lyase/transferase
Chain: U: PDB Molecule:pyridoxal biosynthesis lyase pdxs;
PDBTitle: structure of the plp synthase complex pdx1/2 (yaad/e) from bacillus2 subtilis
112c3r2gA_



not modelled 83.1 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:inosine 5'-monophosphate dehydrogenase;
PDBTitle: crystal structure of inosine 5' monophosphate dehydrogenase from2 legionella pneumophila
113c2v9dB_



not modelled 83.0 20 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
114c1v8bA_



not modelled 82.3 16 PDB header:hydrolase
Chain: A: PDB Molecule:adenosylhomocysteinase;
PDBTitle: crystal structure of a hydrolase
115d2hi6a1



not modelled 82.2 26 Fold:The "swivelling" beta/beta/alpha domain
Superfamily:LeuD/IlvD-like
Family:AF0055-like
116d1hl2a_



not modelled 82.2 22 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:Class I aldolase
117c3citB_



not modelled 82.0 20 PDB header:transferase
Chain: B: PDB Molecule:sensor histidine kinase;
PDBTitle: crystal structure of the gaf domain of a putative sensor histidine2 kinase from pseudomonas syringae pv. tomato
118c1jpkA_



not modelled 81.9 13 PDB header:lyase
Chain: A: PDB Molecule:uroporphyrinogen decarboxylase;
PDBTitle: gly156asp mutant of human urod, human uroporphyrinogen iii2 decarboxylase
119c1jcnA_



not modelled 81.1 15 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
120d1n8ia_



not modelled 80.8 19 Fold:TIM beta/alpha-barrel
Superfamily:Malate synthase G
Family:Malate synthase G

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