Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP32701
DateThu Jan 5 11:50:21 GMT 2012
Unique Job ID45dcf1aa1162ee56

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: 79%
416 residues ( 79% 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  MSHRARHQLLALPGIIFLVLFPIILSLWIAFLWAKSEVNNQLRTFAQLALDKSELVIRQA
Secondary structure 

SS confidence 



























































Disorder  ????























































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







???????












?




















??????????
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   .........130.........140.........150.........160.........170.........180
Sequence  ADYKREPNVSIYYYRDTPFFSGYKMTYMQRGNYVAVINPLFWSEVMSDDPTLQWGVYDTV
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Disorder  ????























































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   .........190.........200.........210.........220.........230.........240
Sequence  TKTFFSLSKEASAATFSPLIHLKDLTVQRNGYLYATVYSTKRPIAAIVATSYQRLITHFY
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Disorder 









??















































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   .........250.........260.........270.........280.........290.........300
Sequence  NHLIFALPAGILGSLVLLLLWLRIRQNYLSPKRKLQRALEKHQLCLYYQPIIDIKTEKCI
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   .........310.........320.........330.........340.........350.........360
Sequence  GAEALLRWPGEQGQIMNPAEFIPLAEKEGMIEQITDYVIDNVFRDLGDYLATHADRYVSI
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   .........370.........380.........390.........400.........410.........420
Sequence  NLSASDFHTSRLIARINQKTEQYAVRPQQIKFEVTEHAFLDVDKMTPIILAFRQAGYEVA
Secondary structure 












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Disorder 





??



















































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   .........430.........440.........450.........460.........470.........480
Sequence  IDDFGIGYSNLHNLKSLNVDILKIDKSFVETLTTHKTSHLIAEHIIELAHSLGLKTIAEG
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   .........490.........500.........510.........520........
Sequence  VETEEQVNWLRKRGVRYCQGWFFAKAMPPQVFMQWMEQLPARELTRGQ
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: 81 - 509
Aligned: 416
Modelled: 427
Confidence: 100.0%
Identity: 18%
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: 96 - 506
Aligned: 368
Modelled: 384
Confidence: 100.0%
Identity: 21%
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: 267 - 512
Aligned: 245
Modelled: 246
Confidence: 100.0%
Identity: 25%
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: 260 - 512
Aligned: 252
Modelled: 253
Confidence: 100.0%
Identity: 25%
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: 269 - 523
Aligned: 252
Modelled: 255
Confidence: 100.0%
Identity: 31%
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: 266 - 509
Aligned: 239
Modelled: 244
Confidence: 100.0%
Identity: 26%
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: 274 - 508
Aligned: 227
Modelled: 235
Confidence: 100.0%
Identity: 23%
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: 269 - 522
Aligned: 241
Modelled: 241
Confidence: 100.0%
Identity: 32%
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: 274 - 519
Aligned: 241
Modelled: 246
Confidence: 100.0%
Identity: 20%
Fold: TIM beta/alpha-barrel
Superfamily: EAL domain-like
Family: EAL domain

Phyre2

PDB 3kzp chain A

3D model

Region: 283 - 508
Aligned: 221
Modelled: 226
Confidence: 100.0%
Identity: 19%
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: 78 - 259
Aligned: 182
Modelled: 182
Confidence: 99.5%
Identity: 9%
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: 79 - 256
Aligned: 173
Modelled: 178
Confidence: 99.4%
Identity: 10%
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 3bre chain A

3D model

Region: 54 - 258
Aligned: 205
Modelled: 205
Confidence: 99.3%
Identity: 11%
PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702

Phyre2

PDB 3icl chain A

3D model

Region: 100 - 259
Aligned: 160
Modelled: 160
Confidence: 99.2%
Identity: 9%
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 3i5c chain A

3D model

Region: 77 - 256
Aligned: 180
Modelled: 180
Confidence: 99.1%
Identity: 8%
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: 95 - 256
Aligned: 162
Modelled: 158
Confidence: 99.1%
Identity: 9%
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 3i5a chain A

3D model

Region: 54 - 255
Aligned: 202
Modelled: 202
Confidence: 99.1%
Identity: 10%
PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae

Phyre2

PDB 3i5b chain A

3D model

Region: 96 - 258
Aligned: 163
Modelled: 163
Confidence: 99.1%
Identity: 10%
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 3hva chain A

3D model

Region: 96 - 254
Aligned: 159
Modelled: 159
Confidence: 99.1%
Identity: 9%
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa

Phyre2

PDB 3mtk chain A

3D model

Region: 93 - 259
Aligned: 158
Modelled: 167
Confidence: 99.0%
Identity: 8%
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
1

c3pjwA_
2

c3gfzB_
3

c3hvbB_
4

c3hv9A_
5

c3s83A_
6

c3pfmA_
7

c2w27A_
8

c2r6oB_
9

d2basa1
10

c3kzpA_
11

c1w25B_
12

c3ezuA_
13

c3breA_
14

c3iclA_
15

c3i5cA_
16

c3ignA_
17

c3i5aA_
18

c3i5bA_
19

c3hvaA_
20

c3mtkA_
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Detailed template information 

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



100.0 18 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 21 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 25 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 25 PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa
5c3s83A_



100.0 31 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15
6c3pfmA_



100.0 26 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 23 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 32 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 20 Fold:TIM beta/alpha-barrel
Superfamily:EAL domain-like
Family:EAL domain
10c3kzpA_



100.0 19 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_



99.5 9 PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp
12c3ezuA_



99.4 10 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
13c3breA_



99.3 11 PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
14c3iclA_



99.2 9 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
15c3i5cA_



99.1 8 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_



99.1 9 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
17c3i5aA_



99.1 10 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
18c3i5bA_



99.1 10 PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
19c3hvaA_



99.1 9 PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa
20c3mtkA_



99.0 8 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
21d1w25a3



not modelled 99.0 9 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
22c3qyyB_



not modelled 99.0 8 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
23c3hvwA_



not modelled 98.5 8 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
24c3khtA_



not modelled 95.1 9 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
25d1mvoa_



not modelled 94.7 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
26c3hebB_



not modelled 94.7 19 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
27d1p6qa_



not modelled 94.5 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
28c2p0oA_



not modelled 94.3 18 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
29c2zayA_



not modelled 93.9 14 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
30c2pz0B_



not modelled 93.2 15 PDB header:hydrolase
Chain: B: PDB Molecule:glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphodiester phosphodiesterase (gdpd)2 from t. tengcongensis
31d1zesa1



not modelled 92.9 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
32d1w25a1



not modelled 92.9 9 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
33c2ayxA_



not modelled 92.8 15 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
34c2yxbA_



not modelled 92.1 17 PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
35d1heya_



not modelled 91.6 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
36c3q58A_



not modelled 91.5 13 PDB header:isomerase
Chain: A: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase;
PDBTitle: structure of n-acetylmannosamine-6-phosphate epimerase from salmonella2 enterica
37c2jk1A_



not modelled 91.2 11 PDB header:dna-binding
Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1;
PDBTitle: crystal structure of the wild-type hupr receiver domain
38d1xhfa1



not modelled 91.0 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
39c2c3zA_



not modelled 90.6 21 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
40d2ayxa1



not modelled 90.4 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
41d1jbea_



not modelled 90.4 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
42d1krwa_



not modelled 90.4 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
43d1a53a_



not modelled 90.4 21 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
44d1yioa2



not modelled 90.3 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
45d1qkka_



not modelled 90.1 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
46d1ua7a2



not modelled 90.0 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
47c3hv2B_



not modelled 89.9 11 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
48d1y0ea_



not modelled 89.9 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
49c3gt7A_



not modelled 89.8 11 PDB header:hydrolase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of signal receiver domain of signal2 transduction histidine kinase from syntrophus3 aciditrophicus
50c2rjnA_



not modelled 89.7 11 PDB header:hydrolase
Chain: A: PDB Molecule:response regulator receiver:metal-dependent
PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
51d1dz3a_



not modelled 89.5 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
52c3eulB_



not modelled 88.7 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
53c3i42A_



not modelled 88.5 12 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
54c3nhzA_



not modelled 88.4 16 PDB header:dna binding protein
Chain: A: PDB Molecule:two component system transcriptional regulator mtra;
PDBTitle: structure of n-terminal domain of mtra
55c3cg0A_



not modelled 88.4 15 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
56d1ny5a1



not modelled 88.3 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
57c2j48A_



not modelled 88.3 16 PDB header:transferase
Chain: A: PDB Molecule:two-component sensor kinase;
PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein.
58d1k68a_



not modelled 88.3 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
59d1u0sy_



not modelled 88.2 18 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
60d1ys7a2



not modelled 88.2 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
61d2pl1a1



not modelled 88.0 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
62c1cygA_



not modelled 87.7 16 PDB header:glycosyltransferase
Chain: A: PDB Molecule:cyclodextrin glucanotransferase;
PDBTitle: cyclodextrin glucanotransferase (e.c.2.4.1.19) (cgtase)
63c3a23A_



not modelled 87.6 20 PDB header:hydrolase
Chain: A: PDB Molecule:putative secreted alpha-galactosidase;
PDBTitle: crystal structure of beta-l-arabinopyranosidase complexed with d-2 galactose
64c2qr3A_



not modelled 87.4 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
65c3gl9B_



not modelled 87.4 16 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
66d1h5ya_



not modelled 87.4 19 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
67d1i3ca_



not modelled 87.1 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
68c2zwmA_



not modelled 87.0 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein yycf;
PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
69c3l12A_



not modelled 87.0 13 PDB header:hydrolase
Chain: A: PDB Molecule:putative glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of putative glycerophosphoryl diester2 phosphodiesterase (yp_165505.1) from silicibacter pomeroyi dss-3 at3 1.60 a resolution
70d1kgsa2



not modelled 87.0 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
71c3igsB_



not modelled 86.9 14 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
72d2r25b1



not modelled 86.6 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
73c2h6rG_



not modelled 86.6 19 PDB header:isomerase
Chain: G: PDB Molecule:triosephosphate isomerase;
PDBTitle: crystal structure of triosephosphate isomerase (tim) from2 methanocaldococcus jannaschii
74c3crnA_



not modelled 86.6 16 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
75d1k66a_



not modelled 86.3 9 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
76c3b2nA_



not modelled 86.2 9 PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein q99uf4;
PDBTitle: crystal structure of dna-binding response regulator, luxr family, from2 staphylococcus aureus
77d1dbwa_



not modelled 86.2 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
78c3cnbC_



not modelled 86.1 15 PDB header:dna binding protein
Chain: C: PDB Molecule:dna-binding response regulator, merr family;
PDBTitle: crystal structure of signal receiver domain of dna binding response2 regulator protein (merr) from colwellia psychrerythraea 34h
79d2a9pa1



not modelled 86.0 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
80c3c97A_



not modelled 86.0 9 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
81d1fmfa_



not modelled 86.0 15 Fold:Flavodoxin-like
Superfamily:Cobalamin (vitamin B12)-binding domain
Family:Cobalamin (vitamin B12)-binding domain
82c3qvqB_



not modelled 85.4 14 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
83c3c3mA_



not modelled 85.1 10 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of the n-terminal domain of response regulator2 receiver protein from methanoculleus marisnigri jr1
84c3grcD_



not modelled 85.0 11 PDB header:transferase
Chain: D: PDB Molecule:sensor protein, kinase;
PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666
85c3cg4A_



not modelled 85.0 10 PDB header:structural genomics, unknown function
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
86c3edeB_



not modelled 84.9 14 PDB header:hydrolase
Chain: B: PDB Molecule:cyclomaltodextrinase;
PDBTitle: structural base for cyclodextrin hydrolysis
87c1bagA_



not modelled 84.7 16 PDB header:alpha-amylase
Chain: A: PDB Molecule:alpha-1,4-glucan-4-glucanohydrolase;
PDBTitle: alpha-amylase from bacillus subtilis complexed with2 maltopentaose
88c3qjaA_



not modelled 84.6 13 PDB header:lyase
Chain: A: PDB Molecule:indole-3-glycerol phosphate synthase;
PDBTitle: crystal structure of the mycobacterium tuberculosis indole-3-glycerol2 phosphate synthase (trpc) in apo form
89c2rdmB_



not modelled 84.2 13 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator receiver protein from2 sinorhizobium medicae wsm419
90c3t6kB_



not modelled 83.8 18 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
91d1zh2a1



not modelled 83.7 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
92c2nt3A_



not modelled 83.5 12 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator homolog;
PDBTitle: receiver domain from myxococcus xanthus social motility protein frzs2 (y102a mutant)
93c3ffsC_



not modelled 83.3 12 PDB header:oxidoreductase
Chain: C: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: the crystal structure of cryptosporidium parvum inosine-5'-2 monophosphate dehydrogenase
94c1jibA_



not modelled 83.3 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.
95c3a47A_



not modelled 83.0 18 PDB header:hydrolase
Chain: A: PDB Molecule:oligo-1,6-glucosidase;
PDBTitle: crystal structure of isomaltase from saccharomyces cerevisiae
96d2d3na2



not modelled 83.0 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
97c3cu5B_



not modelled 82.8 13 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
98c3rqiA_



not modelled 82.6 10 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
99d1a04a2



not modelled 82.6 18 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
100c1uasA_



not modelled 82.6 15 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-galactosidase;
PDBTitle: crystal structure of rice alpha-galactosidase
101c2qzjC_



not modelled 82.5 10 PDB header:transcription
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of a two-component response regulator from2 clostridium difficile
102c3lteH_



not modelled 82.4 11 PDB header:transcription
Chain: H: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator (signal receiver domain) from2 bermanella marisrubri
103d1hvxa2



not modelled 82.3 25 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
104c3ch0A_



not modelled 82.0 32 PDB header:hydrolase
Chain: A: PDB Molecule:glycerophosphodiester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphoryl diester phosphodiesterase2 (yp_677622.1) from cytophaga hutchinsonii atcc 33406 at 1.50 a3 resolution
105c3hdgE_



not modelled 81.8 14 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
106d1w0ma_



not modelled 81.2 15 Fold:TIM beta/alpha-barrel
Superfamily:Triosephosphate isomerase (TIM)
Family:Triosephosphate isomerase (TIM)
107c1m53A_



not modelled 80.9 9 PDB header:isomerase
Chain: A: PDB Molecule:isomaltulose synthase;
PDBTitle: crystal structure of isomaltulose synthase (pali) from2 klebsiella sp. lx3
108d1s8na_



not modelled 80.5 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
109c2jrlA_



not modelled 80.3 13 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
110d1eh9a3



not modelled 80.3 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
111d2gjpa2



not modelled 80.3 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
112c2v82A_



not modelled 80.2 16 PDB header:lyase
Chain: A: PDB Molecule:2-dehydro-3-deoxy-6-phosphogalactonate aldolase;
PDBTitle: kdpgal complexed to kdpgal
113d1mb3a_



not modelled 79.9 18 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
114d1ud2a2



not modelled 79.8 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
115d1lwha2



not modelled 79.5 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
116c3cfyA_



not modelled 79.4 10 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
117d2guya2



not modelled 79.3 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
118c2ze0A_



not modelled 79.3 19 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-glucosidase;
PDBTitle: alpha-glucosidase gsj
119d1uoka2



not modelled 79.2 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
120c3bw2A_



not modelled 79.2 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-nitropropane dioxygenase;
PDBTitle: crystal structures and site-directed mutagenesis study of nitroalkane2 oxidase from streptomyces ansochromogenes

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