Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP77172
DateThu Jan 5 12:25:57 GMT 2012
Unique Job ID69cb39503e698f80

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3pjwA_
Top template information
PDB header:lyase
Chain: A: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23
Confidence and coverage
Confidence:100.0% Coverage: 54%
405 residues ( 54% of your sequence) have been modelled with 100.0% confidence by the single highest scoring template.
You may wish to submit your sequence to Phyrealarm. This will automatically scan your sequence every week for new potential templates as they appear in the Phyre2 library.
3D viewing
Interactive 3D view in Jmol

Sequence analysis 

Secondary structure and disorder prediction 

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











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Disorder  ???????




















































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   .........70.........80.........90.........100.........110.........120
Sequence  SWAALPGIALGIFVRKYAELGFYETLSLTANFIIIIILCWGGYRVFTPRRNNVSHGDTRL
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?
??




















?
???



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
















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

???






















??
?
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   .........250.........260.........270.........280.........290.........300
Sequence  FSTNYTLSLLLPLMMWGAMRYGYKLISLLWAVVLMISIHSYQNYIPIYPGYTTQLTITSS
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Disorder  ????
?

































?
















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

































?









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   .........370.........380.........390.........400.........410.........420
Sequence  IPGMEMLVKNYGIMLRIQYKQKLSHWLSPLLEPGEDVYQLSGNDLALRLNTESHQERITA
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   .........430.........440.........450.........460.........470.........480
Sequence  LDSHLKQFRFFWDGMPMQPQIGVSYCYVRSPVNHIYLLLGELNTVAELSIVTNAPENMQR
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???


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   .........490.........500.........510.........520.........530.........540
Sequence  RGAMYLQRELKDKVAMMNRLQQALEHNHFFLMAQPITGMRGDVYHEILLRMKGENDELIS
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?
?
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   .........550.........560.........570.........580.........590.........600
Sequence  PDSFLPVAHEFGLSSSIDMWVIEHTLQFMAENRAKMPAHRFAINLSPTSVCQARFPVEVS
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?

?











?









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   .........610.........620.........630.........640.........650.........660
Sequence  QLLAKYQIEAWQLIFEVTESNALTNVKQAQITLQHLQELGCQIAIDDFGTGYASYARLKN
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   .........670.........680.........690.........700.........710.........720
Sequence  VNADLLKIDGSFIRNIVSNSLDYQIVASICHLARMKKMLVVAEYVENEEIREAVLSLGID
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???









































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   .........730.........740.......
Sequence  YMQGYLIGKPQPLIDTLNEIEPIRESA
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 3pjw chain A

3D model

Region: 314 - 733
Aligned: 405
Modelled: 420
Confidence: 100.0%
Identity: 22%
PDB header:lyase
Chain: A: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23

Phyre2

PDB 3gfz chain B

3D model

Region: 326 - 730
Aligned: 362
Modelled: 380
Confidence: 100.0%
Identity: 20%
PDB header:hydrolase, signaling protein
Chain: B: PDB Molecule:klebsiella pneumoniae blrp1;
PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex

Phyre2

PDB 3hvb chain B

3D model

Region: 492 - 736
Aligned: 244
Modelled: 245
Confidence: 100.0%
Identity: 30%
PDB header:hydrolase
Chain: B: PDB Molecule:protein fimx;
PDBTitle: crystal structure of the dual-domain ggdef-eal module of2 fimx from pseudomonas aeruginosa

Phyre2

PDB 3hv9 chain A

3D model

Region: 482 - 736
Aligned: 254
Modelled: 255
Confidence: 100.0%
Identity: 29%
PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa

Phyre2

PDB 3s83 chain A

3D model

Region: 496 - 744
Aligned: 246
Modelled: 249
Confidence: 100.0%
Identity: 28%
PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15

Phyre2

PDB 3pfm chain A

3D model

Region: 490 - 733
Aligned: 238
Modelled: 244
Confidence: 100.0%
Identity: 27%
PDB header:signaling protein
Chain: A: PDB Molecule:ggdef domain protein;
PDBTitle: crystal structure of a eal domain of ggdef domain protein from2 pseudomonas fluorescens pf

Phyre2

PDB 2w27 chain A

3D model

Region: 500 - 732
Aligned: 225
Modelled: 233
Confidence: 100.0%
Identity: 22%
PDB header:signaling protein
Chain: A: PDB Molecule:ykui protein;
PDBTitle: crystal structure of the bacillus subtilis ykui protein,2 with an eal domain, in complex with substrate c-di-gmp and3 calcium

Phyre2

PDB 2r6o chain B

3D model

Region: 495 - 744
Aligned: 237
Modelled: 237
Confidence: 100.0%
Identity: 27%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative diguanylate cyclase/phosphodiesterase (ggdef & eal
PDBTitle: crystal structure of putative diguanylate cyclase/phosphodiesterase2 from thiobacillus denitrificans

Phyre2

PDB 2bas chain A domain 1

3D model

Region: 499 - 746
Aligned: 243
Modelled: 248
Confidence: 100.0%
Identity: 19%
Fold: TIM beta/alpha-barrel
Superfamily: EAL domain-like
Family: EAL domain

Phyre2

PDB 3kzp chain A

3D model

Region: 508 - 733
Aligned: 221
Modelled: 225
Confidence: 100.0%
Identity: 24%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative diguanylate cyclase/phosphodiesterase;
PDBTitle: crystal structure of putative diguanylate cyclase/phosphodiesterase2 from listaria monocytigenes

Phyre2

PDB 1w25 chain B

3D model

Region: 299 - 482
Aligned: 184
Modelled: 184
Confidence: 100.0%
Identity: 10%
PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp

Phyre2

PDB 3ezu chain A

3D model

Region: 305 - 479
Aligned: 169
Modelled: 175
Confidence: 100.0%
Identity: 7%
PDB header:signaling protein
Chain: A: PDB Molecule:ggdef domain protein;
PDBTitle: crystal structure of multidomain protein of unknown function with2 ggdef-domain (np_951600.1) from geobacter sulfurreducens at 1.95 a3 resolution

Phyre2

PDB 3mtk chain A

3D model

Region: 325 - 484
Aligned: 155
Modelled: 160
Confidence: 99.9%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase/phosphodiesterase;
PDBTitle: x-ray structure of diguanylate cyclase/phosphodiesterase from2 caldicellulosiruptor saccharolyticus, northeast structural genomics3 consortium target clr27c

Phyre2

PDB 3bre chain A

3D model

Region: 289 - 481
Aligned: 193
Modelled: 193
Confidence: 99.9%
Identity: 10%
PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702

Phyre2

PDB 3i5c chain A

3D model

Region: 312 - 479
Aligned: 168
Modelled: 168
Confidence: 99.9%
Identity: 14%
PDB header:signaling protein
Chain: A: PDB Molecule:fusion of general control protein gcn4 and wspr response
PDBTitle: crystal structure of a fusion protein containing the leucine zipper of2 gcn4 and the ggdef domain of wspr from pseudomonas aeruginosa

Phyre2

PDB 3ign chain A

3D model

Region: 328 - 480
Aligned: 153
Modelled: 149
Confidence: 99.9%
Identity: 8%
PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase;
PDBTitle: crystal structure of the ggdef domain from marinobacter2 aquaeolei diguanylate cyclase complexed with c-di-gmp -3 northeast structural genomics consortium target mqr89a

Phyre2

PDB 3icl chain A

3D model

Region: 332 - 482
Aligned: 151
Modelled: 150
Confidence: 99.9%
Identity: 13%
PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:eal/ggdef domain protein;
PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium3 target mcr174c

Phyre2

PDB 3hva chain A

3D model

Region: 329 - 478
Aligned: 150
Modelled: 150
Confidence: 99.9%
Identity: 13%
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa

Phyre2

PDB 3i5b chain A

3D model

Region: 329 - 481
Aligned: 153
Modelled: 153
Confidence: 99.9%
Identity: 12%
PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa

Phyre2

PDB 3qyy chain B

3D model

Region: 326 - 479
Aligned: 144
Modelled: 144
Confidence: 99.9%
Identity: 13%
PDB header:signaling protein/inhibitor
Chain: B: PDB Molecule:response regulator;
PDBTitle: a novel interaction mode between a microbial ggdef domain and the bis-2 (3, 5 )-cyclic di-gmp

Phyre2

PDB 3rlg chain A

3D model

Region: 687 - 745
Aligned: 56
Modelled: 56
Confidence: 71.7%
Identity: 20%
PDB header:hydrolase
Chain: A: PDB Molecule:sphingomyelin phosphodiesterase d lisictox-alphaia1a;
PDBTitle: crystal structure of loxosceles intermedia phospholipase d isoform 12 h12a mutant

Phyre2
1

c3pjwA_
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c3gfzB_
3

c3hvbB_
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c3hv9A_
5

c3s83A_
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c3pfmA_
7

c2w27A_
8

c2r6oB_
9

d2basa1
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c3kzpA_
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c1w25B_
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c3ezuA_
13

c3mtkA_
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c3breA_
15

c3i5cA_
16

c3ignA_
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c3iclA_
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c3hvaA_
19

c3i5bA_
20

c3qyyB_
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c3rlgA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3pjwA_



100.0 22 PDB header:lyase
Chain: A: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23
2c3gfzB_



100.0 20 PDB header:hydrolase, signaling protein
Chain: B: PDB Molecule:klebsiella pneumoniae blrp1;
PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex
3c3hvbB_



100.0 30 PDB header:hydrolase
Chain: B: PDB Molecule:protein fimx;
PDBTitle: crystal structure of the dual-domain ggdef-eal module of2 fimx from pseudomonas aeruginosa
4c3hv9A_



100.0 29 PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa
5c3s83A_



100.0 28 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15
6c3pfmA_



100.0 27 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef domain protein;
PDBTitle: crystal structure of a eal domain of ggdef domain protein from2 pseudomonas fluorescens pf
7c2w27A_



100.0 22 PDB header:signaling protein
Chain: A: PDB Molecule:ykui protein;
PDBTitle: crystal structure of the bacillus subtilis ykui protein,2 with an eal domain, in complex with substrate c-di-gmp and3 calcium
8c2r6oB_



100.0 27 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative diguanylate cyclase/phosphodiesterase (ggdef & eal
PDBTitle: crystal structure of putative diguanylate cyclase/phosphodiesterase2 from thiobacillus denitrificans
9d2basa1



100.0 19 Fold:TIM beta/alpha-barrel
Superfamily:EAL domain-like
Family:EAL domain
10c3kzpA_



100.0 24 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative diguanylate cyclase/phosphodiesterase;
PDBTitle: crystal structure of putative diguanylate cyclase/phosphodiesterase2 from listaria monocytigenes
11c1w25B_



100.0 10 PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp
12c3ezuA_



100.0 7 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef domain protein;
PDBTitle: crystal structure of multidomain protein of unknown function with2 ggdef-domain (np_951600.1) from geobacter sulfurreducens at 1.95 a3 resolution
13c3mtkA_



99.9 17 PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase/phosphodiesterase;
PDBTitle: x-ray structure of diguanylate cyclase/phosphodiesterase from2 caldicellulosiruptor saccharolyticus, northeast structural genomics3 consortium target clr27c
14c3breA_



99.9 10 PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
15c3i5cA_



99.9 14 PDB header:signaling protein
Chain: A: PDB Molecule:fusion of general control protein gcn4 and wspr response
PDBTitle: crystal structure of a fusion protein containing the leucine zipper of2 gcn4 and the ggdef domain of wspr from pseudomonas aeruginosa
16c3ignA_



99.9 8 PDB header:transferase
Chain: A: PDB Molecule:diguanylate cyclase;
PDBTitle: crystal structure of the ggdef domain from marinobacter2 aquaeolei diguanylate cyclase complexed with c-di-gmp -3 northeast structural genomics consortium target mqr89a
17c3iclA_



99.9 13 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:eal/ggdef domain protein;
PDBTitle: x-ray structure of protein (eal/ggdef domain protein) from2 m.capsulatus, northeast structural genomics consortium3 target mcr174c
18c3hvaA_



99.9 13 PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa
19c3i5bA_



99.9 12 PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
20c3qyyB_



99.9 13 PDB header:signaling protein/inhibitor
Chain: B: PDB Molecule:response regulator;
PDBTitle: a novel interaction mode between a microbial ggdef domain and the bis-2 (3, 5 )-cyclic di-gmp
21c3i5aA_



not modelled 99.9 14 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
22d1w25a3



not modelled 99.9 9 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
23c3hvwA_



not modelled 99.7 14 PDB header:lyase
Chain: A: PDB Molecule:diguanylate-cyclase (dgc);
PDBTitle: crystal structure of the ggdef domain of the pa2567 protein2 from pseudomonas aeruginosa, northeast structural genomics3 consortium target par365c
24c3p7nB_



not modelled 97.7 15 PDB header:dna binding protein
Chain: B: PDB Molecule:sensor histidine kinase;
PDBTitle: crystal structure of light activated transcription factor el222 from2 erythrobacter litoralis
25c3khtA_



not modelled 96.2 11 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
26d1mvoa_



not modelled 95.5 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
27c2zayA_



not modelled 95.2 15 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
28d1p6qa_



not modelled 94.6 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
29c3hebB_



not modelled 94.6 18 PDB header:transcription regulator
Chain: B: PDB Molecule:response regulator receiver domain protein (chey);
PDBTitle: crystal structure of response regulator receiver domain from2 rhodospirillum rubrum
30c2qv6D_



not modelled 94.5 9 PDB header:hydrolase
Chain: D: PDB Molecule:gtp cyclohydrolase iii;
PDBTitle: gtp cyclohydrolase iii from m. jannaschii (mj0145)2 complexed with gtp and metal ions
31d1krwa_



not modelled 94.4 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
32c2jk1A_



not modelled 94.3 11 PDB header:dna-binding
Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1;
PDBTitle: crystal structure of the wild-type hupr receiver domain
33d1w25a1



not modelled 94.2 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
34d1jbea_



not modelled 93.9 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
35c2pz0B_



not modelled 93.7 14 PDB header:hydrolase
Chain: B: PDB Molecule:glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphodiester phosphodiesterase (gdpd)2 from t. tengcongensis
36d1a53a_



not modelled 93.5 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
37c3nhzA_



not modelled 93.3 16 PDB header:dna binding protein
Chain: A: PDB Molecule:two component system transcriptional regulator mtra;
PDBTitle: structure of n-terminal domain of mtra
38c3eulB_



not modelled 93.2 12 PDB header:transcription
Chain: B: PDB Molecule:possible nitrate/nitrite response transcriptional
PDBTitle: structure of the signal receiver domain of the putative2 response regulator narl from mycobacterium tuberculosis
39c3q58A_



not modelled 93.2 10 PDB header:isomerase
Chain: A: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase;
PDBTitle: structure of n-acetylmannosamine-6-phosphate epimerase from salmonella2 enterica
40c2c3zA_



not modelled 93.2 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
41d1ua7a2



not modelled 93.1 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
42d1dz3a_



not modelled 93.1 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
43c3gt7A_



not modelled 92.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of signal receiver domain of signal2 transduction histidine kinase from syntrophus3 aciditrophicus
44c2rjnA_



not modelled 92.9 16 PDB header:hydrolase
Chain: A: PDB Molecule:response regulator receiver:metal-dependent
PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
45d1u0sy_



not modelled 92.9 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
46c2qr3A_



not modelled 92.9 13 PDB header:transcription
Chain: A: PDB Molecule:two-component system response regulator;
PDBTitle: crystal structure of the n-terminal signal receiver domain of two-2 component system response regulator from bacteroides fragilis
47c3b2nA_



not modelled 92.6 14 PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein q99uf4;
PDBTitle: crystal structure of dna-binding response regulator, luxr family, from2 staphylococcus aureus
48d1yioa2



not modelled 92.5 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
49d1gjwa2



not modelled 92.5 11 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
50d1dbwa_



not modelled 92.4 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
51c3c97A_



not modelled 92.2 11 PDB header:signaling protein, transferase
Chain: A: PDB Molecule:signal transduction histidine kinase;
PDBTitle: crystal structure of the response regulator receiver domain2 of a signal transduction histidine kinase from aspergillus3 oryzae
52c3i42A_



not modelled 92.1 17 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:response regulator receiver domain protein (chey-
PDBTitle: structure of response regulator receiver domain (chey-like)2 from methylobacillus flagellatus
53d1ys7a2



not modelled 92.1 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
54d1qkka_



not modelled 91.9 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
55c3crnA_



not modelled 91.8 20 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver domain protein, chey-like;
PDBTitle: crystal structure of response regulator receiver domain protein (chey-2 like) from methanospirillum hungatei jf-1
56d1ny5a1



not modelled 91.7 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
57d1xm3a_



not modelled 91.5 15 Fold:TIM beta/alpha-barrel
Superfamily:ThiG-like
Family:ThiG-like
58d1k68a_



not modelled 91.5 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
59c2zwmA_



not modelled 91.4 15 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein yycf;
PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
60c3gl9B_



not modelled 91.3 18 PDB header:signaling protein
Chain: B: PDB Molecule:response regulator;
PDBTitle: the structure of a histidine kinase-response regulator2 complex sheds light into two-component signaling and3 reveals a novel cis autophosphorylation mechanism
61d1a04a2



not modelled 91.1 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
62c1qhoA_



not modelled 91.1 16 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: five-domain alpha-amylase from bacillus stearothermophilus,2 maltose/acarbose complex
63d1heya_



not modelled 90.9 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
64d1vhna_



not modelled 90.8 11 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
65d1nvma2



not modelled 90.8 10 Fold:TIM beta/alpha-barrel
Superfamily:Aldolase
Family:HMGL-like
66c2p0oA_



not modelled 90.7 10 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein duf871;
PDBTitle: crystal structure of a conserved protein from locus ef_2437 in2 enterococcus faecalis with an unknown function
67c1gjuA_



not modelled 90.6 12 PDB header:transferase
Chain: A: PDB Molecule:maltodextrin glycosyltransferase;
PDBTitle: maltosyltransferase from thermotoga maritima
68d1y0ea_



not modelled 90.5 7 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
69d1kgsa2



not modelled 90.4 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
70d2r25b1



not modelled 90.0 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
71c3qvqB_



not modelled 89.9 15 PDB header:hydrolase
Chain: B: PDB Molecule:phosphodiesterase olei02445;
PDBTitle: the structure of an oleispira antarctica phosphodiesterase olei024452 in complex with the product sn-glycerol-3-phosphate
72c3cg0A_



not modelled 89.8 14 PDB header:lyase
Chain: A: PDB Molecule:response regulator receiver modulated diguanylate cyclase
PDBTitle: crystal structure of signal receiver domain of modulated diguanylate2 cyclase from desulfovibrio desulfuricans g20, an example of alternate3 folding
73c1cygA_



not modelled 89.8 15 PDB header:glycosyltransferase
Chain: A: PDB Molecule:cyclodextrin glucanotransferase;
PDBTitle: cyclodextrin glucanotransferase (e.c.2.4.1.19) (cgtase)
74c2yxbA_



not modelled 89.6 13 PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
75d2pl1a1



not modelled 89.6 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
76c3ucqA_



not modelled 89.5 12 PDB header:transferase
Chain: A: PDB Molecule:amylosucrase;
PDBTitle: crystal structure of amylosucrase from deinococcus geothermalis
77d1xhfa1



not modelled 89.3 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
78c3kruC_



not modelled 89.3 17 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh:flavin oxidoreductase/nadh oxidase;
PDBTitle: crystal structure of the thermostable old yellow enzyme from2 thermoanaerobacter pseudethanolicus e39
79d1k66a_



not modelled 89.2 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
80d1zh2a1



not modelled 89.1 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
81c2ayxA_



not modelled 89.0 19 PDB header:transferase
Chain: A: PDB Molecule:sensor kinase protein rcsc;
PDBTitle: solution structure of the e.coli rcsc c-terminus (residues2 700-949) containing linker region and phosphoreceiver3 domain
82c3f6cB_



not modelled 88.8 15 PDB header:dna binding protein
Chain: B: PDB Molecule:positive transcription regulator evga;
PDBTitle: crystal structure of n-terminal domain of positive transcription2 regulator evga from escherichia coli
83c3gr7A_



not modelled 88.7 18 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
84c3hv2B_



not modelled 88.7 14 PDB header:signaling protein
Chain: B: PDB Molecule:response regulator/hd domain protein;
PDBTitle: crystal structure of signal receiver domain of hd domain-2 containing protein from pseudomonas fluorescens pf-5
85c3cu5B_



not modelled 88.5 11 PDB header:transcription regulator
Chain: B: PDB Molecule:two component transcriptional regulator, arac family;
PDBTitle: crystal structure of a two component transcriptional regulator arac2 from clostridium phytofermentans isdg
86d2ayxa1



not modelled 88.5 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
87c3a47A_



not modelled 88.4 18 PDB header:hydrolase
Chain: A: PDB Molecule:oligo-1,6-glucosidase;
PDBTitle: crystal structure of isomaltase from saccharomyces cerevisiae
88c1m53A_



not modelled 88.2 15 PDB header:isomerase
Chain: A: PDB Molecule:isomaltulose synthase;
PDBTitle: crystal structure of isomaltulose synthase (pali) from2 klebsiella sp. lx3
89c3edeB_



not modelled 88.2 16 PDB header:hydrolase
Chain: B: PDB Molecule:cyclomaltodextrinase;
PDBTitle: structural base for cyclodextrin hydrolysis
90c2h6rG_



not modelled 88.1 19 PDB header:isomerase
Chain: G: PDB Molecule:triosephosphate isomerase;
PDBTitle: crystal structure of triosephosphate isomerase (tim) from2 methanocaldococcus jannaschii
91c3igsB_



not modelled 87.8 9 PDB header:isomerase
Chain: B: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase 2;
PDBTitle: structure of the salmonella enterica n-acetylmannosamine-6-phosphate2 2-epimerase
92d2guya2



not modelled 87.5 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
93c2j48A_



not modelled 87.4 10 PDB header:transferase
Chain: A: PDB Molecule:two-component sensor kinase;
PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein.
94d1h3ga3



not modelled 87.3 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
95c1bagA_



not modelled 87.2 12 PDB header:alpha-amylase
Chain: A: PDB Molecule:alpha-1,4-glucan-4-glucanohydrolase;
PDBTitle: alpha-amylase from bacillus subtilis complexed with2 maltopentaose
96c2ze0A_



not modelled 87.1 21 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-glucosidase;
PDBTitle: alpha-glucosidase gsj
97d1qhoa4



not modelled 87.0 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
98c3t6kB_



not modelled 86.9 14 PDB header:signaling protein
Chain: B: PDB Molecule:response regulator receiver;
PDBTitle: crystal structure of a hypothetical response regulator (caur_3799)2 from chloroflexus aurantiacus j-10-fl at 1.86 a resolution
99c3t8yA_



not modelled 86.8 16 PDB header:hydrolase
Chain: A: PDB Molecule:chemotaxis response regulator protein-glutamate
PDBTitle: crystal structure of the response regulator domain of thermotoga2 maritima cheb
100d1mb3a_



not modelled 86.7 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
101d2aaaa2



not modelled 86.6 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
102c3hdgE_



not modelled 86.6 11 PDB header:structural genomics, unknown function
Chain: E: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the n-terminal domain of an2 uncharacterized protein (ws1339) from wolinella3 succinogenes
103c2jrlA_



not modelled 86.4 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
104c3cfyA_



not modelled 86.3 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative luxo repressor protein;
PDBTitle: crystal structure of signal receiver domain of putative luxo2 repressor protein from vibrio parahaemolyticus
105c2wcsA_



not modelled 86.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:alpha amylase, catalytic region;
PDBTitle: crystal structure of debranching enzyme from nostoc2 punctiforme (npde)
106d1i4na_



not modelled 85.8 13 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
107d1lwha2



not modelled 85.7 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
108d1tz9a_



not modelled 85.5 19 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:UxuA-like
109c1cjkA_



not modelled 85.5 8 PDB header:lyase/lyase/signaling protein
Chain: A: PDB Molecule:adenylate cyclase, type v;
PDBTitle: complex of gs-alpha with the catalytic domains of mammalian adenylyl2 cyclase: complex with adenosine 5'-(alpha thio)-triphosphate (rp),3 mg, and mn
110c1jibA_



not modelled 85.2 21 PDB header:hydrolase
Chain: A: PDB Molecule:neopullulanase;
PDBTitle: complex of alpha-amylase ii (tva ii) from thermoactinomyces2 vulgaris r-47 with maltotetraose based on a crystal soaked3 with maltohexaose.
111d2a9pa1



not modelled 85.0 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
112d1w0ma_



not modelled 85.0 18 Fold:TIM beta/alpha-barrel
Superfamily:Triosephosphate isomerase (TIM)
Family:Triosephosphate isomerase (TIM)
113c1tcmB_



not modelled 84.9 12 PDB header:glycosyltransferase
Chain: B: PDB Molecule:cyclodextrin glycosyltransferase;
PDBTitle: cyclodextrin glycosyltransferase w616a mutant from bacillus2 circulans strain 251
114c3rqiA_



not modelled 84.8 15 PDB header:transcription
Chain: A: PDB Molecule:response regulator protein;
PDBTitle: crystal structure of a response regulator protein from burkholderia2 pseudomallei with a phosphorylated aspartic acid, calcium ion and3 citrate
115d1fmfa_



not modelled 84.8 14 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
116d1eh9a3



not modelled 84.8 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
117d1m53a2



not modelled 84.7 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
118d1i3ca_



not modelled 84.5 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
119c3uvjC_



not modelled 84.4 7 PDB header:lyase
Chain: C: PDB Molecule:guanylate cyclase soluble subunit alpha-3;
PDBTitle: crystal structure of the catalytic domain of the heterodimeric human2 soluble guanylate cyclase 1.
120c2otdC_



not modelled 84.4 9 PDB header:hydrolase
Chain: C: PDB Molecule:glycerophosphodiester phosphodiesterase;
PDBTitle: the crystal structure of the glycerophosphodiester phosphodiesterase2 from shigella flexneri 2a

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