Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP13518
DateThu Jan 5 11:33:38 GMT 2012
Unique Job ID0fba59284080d6c1

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: 64%
415 residues ( 64% 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.
538 residues ( 83%) 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  MRLTTKFSAFVTLLTGLTIFVTLLGCSLSFYNAIQYKFSHRVQAVATAIDTHLVSNDFSV
Secondary structure 




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   .........70.........80.........90.........100.........110.........120
Sequence  LRPQITELMMSADIVRVDLLHGDKQVYTLARNGSYRPVGSSDLFRELSVPLIKHPGMSLR
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?
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   .........130.........140.........150.........160.........170.........180
Sequence  LVYQDPMGNYFHSLMTTAPLTGAIGFIIVMLFLAVRWLQRQLAGQELLETRATRILNGER
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   .........190.........200.........210.........220.........230.........240
Sequence  GSNVLGTIYEWPPRTSSALDTLLREIQNAREQHSRLDTLIRSYAAQDVKTGLNNRLFFDN
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   .........250.........260.........270.........280.........290.........300
Sequence  QLATLLEDQEKVGTHGIVMMIRLPDFNMLSDTWGHSQVEEQFFTLTNLLSTFMMRYPGAL
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   .........310.........320.........330.........340.........350.........360
Sequence  LARYHRSDFAALLPHRTLKEAESIAGQLIKAVDTLPNNKMLDRDDMIHIGICAWRSGQDT
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   .........370.........380.........390.........400.........410.........420
Sequence  EQVMEHAESATRNAGLQGGNSWAIYDDSLPEKGRGNVRWRTLIEQMLSRGGPRLYQKPAV
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   .........430.........440.........450.........460.........470.........480
Sequence  TREGQVHHRELMCRIFDGNEEVSSAEYMPMVLQFGLSEEYDRLQISRLIPLLRYWPEENL
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   .........490.........500.........510.........520.........530.........540
Sequence  AIQVTVESLIRPRFQRWLRDTLMQCEKSQRKRIIIELAEADVGQHISRLQPVIRLVNALG
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   .........550.........560.........570.........580.........590.........600
Sequence  VRVAVNQAGLTLVSTSWIKELNVELLKLHPGLVRNIEKRTENQLLVQSLVEACSGTSTQV
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   .........610.........620.........630.........640......
Sequence  YATGVRSRSEWQTLIQRGVTGGQGDFFASSQPLDTNVKKYSQRYSV
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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: 208 - 632
Aligned: 415
Modelled: 425
Confidence: 100.0%
Identity: 23%
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: 220 - 630
Aligned: 372
Modelled: 385
Confidence: 100.0%
Identity: 19%
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: 399 - 636
Aligned: 236
Modelled: 238
Confidence: 100.0%
Identity: 23%
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: 391 - 636
Aligned: 244
Modelled: 246
Confidence: 100.0%
Identity: 21%
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: 399 - 645
Aligned: 243
Modelled: 247
Confidence: 100.0%
Identity: 19%
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: 394 - 632
Aligned: 236
Modelled: 239
Confidence: 100.0%
Identity: 20%
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: 401 - 632
Aligned: 226
Modelled: 232
Confidence: 100.0%
Identity: 14%
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: 398 - 645
Aligned: 239
Modelled: 248
Confidence: 100.0%
Identity: 19%
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: 401 - 632
Aligned: 227
Modelled: 232
Confidence: 100.0%
Identity: 14%
Fold: TIM beta/alpha-barrel
Superfamily: EAL domain-like
Family: EAL domain

Phyre2

PDB 3kzp chain A

3D model

Region: 411 - 633
Aligned: 223
Modelled: 223
Confidence: 100.0%
Identity: 14%
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: 196 - 387
Aligned: 190
Modelled: 192
Confidence: 100.0%
Identity: 22%
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: 199 - 384
Aligned: 176
Modelled: 186
Confidence: 100.0%
Identity: 15%
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: 193 - 387
Aligned: 194
Modelled: 195
Confidence: 99.9%
Identity: 22%
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: 196 - 385
Aligned: 189
Modelled: 190
Confidence: 99.9%
Identity: 22%
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 3i5b chain A

3D model

Region: 223 - 386
Aligned: 163
Modelled: 164
Confidence: 99.9%
Identity: 24%
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 3i5a chain A

3D model

Region: 193 - 383
Aligned: 190
Modelled: 191
Confidence: 99.9%
Identity: 23%
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 3ign chain A

3D model

Region: 222 - 384
Aligned: 161
Modelled: 159
Confidence: 99.9%
Identity: 20%
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: 226 - 387
Aligned: 160
Modelled: 161
Confidence: 99.9%
Identity: 21%
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 3qyy chain B

3D model

Region: 220 - 384
Aligned: 154
Modelled: 165
Confidence: 99.9%
Identity: 14%
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 3hva chain A

3D model

Region: 223 - 382
Aligned: 158
Modelled: 160
Confidence: 99.9%
Identity: 24%
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa

Phyre2

PDB 3pjv chain D

3D model

Region: 23 - 140
Aligned: 118
Modelled: 115
Confidence: 96.9%
Identity: 11%
PDB header:lyase
Chain: D: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd periplasmic domain

Phyre2
1

c3pjwA_
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c3gfzB_
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c3hvbB_
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c3hv9A_
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c3s83A_
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c3pfmA_
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c2w27A_
8

c2r6oB_
9

d2basa1
10

c3kzpA_
11

c1w25B_
12

c3ezuA_
13

c3breA_
14

c3i5cA_
15

c3i5bA_
16

c3i5aA_
17

c3ignA_
18

c3iclA_
19

c3qyyB_
20

c3hvaA_
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c3pjvD_
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Detailed template information 

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



100.0 23 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 19 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 23 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 21 PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa
5c3s83A_



100.0 19 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15
6c3pfmA_



100.0 20 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 14 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 19 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 14 Fold:TIM beta/alpha-barrel
Superfamily:EAL domain-like
Family:EAL domain
10c3kzpA_



100.0 14 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 22 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 15 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_



99.9 22 PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
14c3i5cA_



99.9 22 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
15c3i5bA_



99.9 24 PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
16c3i5aA_



99.9 23 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
17c3ignA_



99.9 20 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
18c3iclA_



99.9 21 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
19c3qyyB_



99.9 14 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
20c3hvaA_



99.9 24 PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa
21c3mtkA_



not modelled 99.9 15 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
22d1w25a3



not modelled 99.9 24 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
23c3hvwA_



not modelled 99.8 18 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 97.8 12 PDB header:dna binding protein
Chain: B: PDB Molecule:sensor histidine kinase;
PDBTitle: crystal structure of light activated transcription factor el222 from2 erythrobacter litoralis
25c3pjvD_



96.9 11 PDB header:lyase
Chain: D: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd periplasmic domain
26c3khtA_



not modelled 96.2 10 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
27d1mvoa_



not modelled 96.0 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
28c3b2nA_



not modelled 95.7 10 PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein q99uf4;
PDBTitle: crystal structure of dna-binding response regulator, luxr family, from2 staphylococcus aureus
29d1p6qa_



not modelled 95.6 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
30d1krwa_



not modelled 95.5 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
31c2zayA_



not modelled 95.4 18 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
32c3hebB_



not modelled 95.2 11 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
33c2qv6D_



not modelled 95.1 17 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
34c2p0oA_



not modelled 94.9 16 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
35d1w25a1



not modelled 94.9 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
36d1zesa1



not modelled 94.8 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
37c3gt7A_



not modelled 94.7 8 PDB header:hydrolase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of signal receiver domain of signal2 transduction histidine kinase from syntrophus3 aciditrophicus
38c2ayxA_



not modelled 94.7 11 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
39d1a53a_



not modelled 94.7 14 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
40d1jbea_



not modelled 94.6 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
41d1u0sy_



not modelled 94.6 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
42c3hv2B_



not modelled 94.3 10 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
43c2rjnA_



not modelled 94.3 11 PDB header:hydrolase
Chain: A: PDB Molecule:response regulator receiver:metal-dependent
PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
44d1dbwa_



not modelled 94.2 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
45c3nhzA_



not modelled 94.2 16 PDB header:dna binding protein
Chain: A: PDB Molecule:two component system transcriptional regulator mtra;
PDBTitle: structure of n-terminal domain of mtra
46c3t6kB_



not modelled 94.2 12 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
47d2a9pa1



not modelled 94.1 8 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
48d2ayxa1



not modelled 94.1 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
49c3q58A_



not modelled 94.0 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
50d1dz3a_



not modelled 94.0 7 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
51d1heya_



not modelled 94.0 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
52c2yxbA_



not modelled 94.0 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
53c1cjkA_



not modelled 94.0 7 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
54c2qr3A_



not modelled 93.9 15 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
55d1qkka_



not modelled 93.9 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
56d2pl1a1



not modelled 93.8 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
57c2c3zA_



not modelled 93.7 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
58d1ny5a1



not modelled 93.7 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
59c3c97A_



not modelled 93.6 4 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
60d1xhfa1



not modelled 93.6 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
61d1kgsa2



not modelled 93.3 9 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
62c3eulB_



not modelled 93.3 13 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
63d1y0ea_



not modelled 93.3 12 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
64c3i42A_



not modelled 93.2 8 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
65c3mr7B_



not modelled 93.2 13 PDB header:hydrolase
Chain: B: PDB Molecule:adenylate/guanylate cyclase/hydrolase, alpha/beta fold
PDBTitle: crystal structure of adenylate/guanylate cyclase/hydrolase from2 silicibacter pomeroyi
66d1a04a2



not modelled 93.1 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
67d1peya_



not modelled 93.1 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
68d1yioa2



not modelled 93.0 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
69c2zwmA_



not modelled 93.0 11 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein yycf;
PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
70c2jk1A_



not modelled 92.9 10 PDB header:dna-binding
Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1;
PDBTitle: crystal structure of the wild-type hupr receiver domain
71c2jrlA_



not modelled 92.8 17 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
72c3lteH_



not modelled 92.6 8 PDB header:transcription
Chain: H: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator (signal receiver domain) from2 bermanella marisrubri
73c2pz0B_



not modelled 92.6 14 PDB header:hydrolase
Chain: B: PDB Molecule:glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphodiester phosphodiesterase (gdpd)2 from t. tengcongensis
74c3cg0A_



not modelled 92.6 13 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
75c3gl9B_



not modelled 92.5 10 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
76c2qvgA_



not modelled 92.4 17 PDB header:transferase
Chain: A: PDB Molecule:two component response regulator;
PDBTitle: the crystal structure of a two-component response regulator2 from legionella pneumophila
77d1i3ca_



not modelled 92.3 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
78c3crnA_



not modelled 92.3 15 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
79c3igsB_



not modelled 92.3 12 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
80d1ys7a2



not modelled 92.3 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
81c3c3mA_



not modelled 92.1 8 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
82c3cu5B_



not modelled 92.1 10 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
83d2r25b1



not modelled 91.7 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
84d1k66a_



not modelled 91.4 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
85d1vhna_



not modelled 91.2 9 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
86c3f6cB_



not modelled 91.1 10 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
87d1zgza1



not modelled 91.0 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
88c3grcD_



not modelled 90.9 5 PDB header:transferase
Chain: D: PDB Molecule:sensor protein, kinase;
PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666
89c3cnbC_



not modelled 90.8 9 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
90d1tz9a_



not modelled 90.7 16 Fold:TIM beta/alpha-barrel
Superfamily:Xylose isomerase-like
Family:UxuA-like
91c3qvqB_



not modelled 90.5 11 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
92d1zh2a1



not modelled 90.4 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
93c3cfyA_



not modelled 90.4 16 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
94c3cg4A_



not modelled 90.2 8 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
95c3ffsC_



not modelled 90.2 14 PDB header:oxidoreductase
Chain: C: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: the crystal structure of cryptosporidium parvum inosine-5'-2 monophosphate dehydrogenase
96d1s8na_



not modelled 90.2 9 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
97c2h6rG_



not modelled 90.0 7 PDB header:isomerase
Chain: G: PDB Molecule:triosephosphate isomerase;
PDBTitle: crystal structure of triosephosphate isomerase (tim) from2 methanocaldococcus jannaschii
98d1w0ma_



not modelled 90.0 15 Fold:TIM beta/alpha-barrel
Superfamily:Triosephosphate isomerase (TIM)
Family:Triosephosphate isomerase (TIM)
99c2w01C_



not modelled 90.0 10 PDB header:lyase
Chain: C: PDB Molecule:adenylate cyclase;
PDBTitle: crystal structure of the guanylyl cyclase cya2
100d1xm3a_



not modelled 89.9 10 Fold:TIM beta/alpha-barrel
Superfamily:ThiG-like
Family:ThiG-like
101c2qxyB_



not modelled 89.8 12 PDB header:transcription
Chain: B: PDB Molecule:response regulator;
PDBTitle: crystal structure of a response regulator from thermotoga2 maritima
102c2j48A_



not modelled 89.7 10 PDB header:transferase
Chain: A: PDB Molecule:two-component sensor kinase;
PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein.
103d1k68a_



not modelled 89.7 7 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
104c2nt3A_



not modelled 89.5 11 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator homolog;
PDBTitle: receiver domain from myxococcus xanthus social motility protein frzs2 (y102a mutant)
105d1azsa_



not modelled 89.5 8 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
106c3hdgE_



not modelled 89.4 7 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
107c3cz5B_



not modelled 89.4 13 PDB header:transcription regulator
Chain: B: PDB Molecule:two-component response regulator, luxr family;
PDBTitle: crystal structure of two-component response regulator, luxr family,2 from aurantimonas sp. si85-9a1
108d1mb3a_



not modelled 89.3 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
109c2qv0A_



not modelled 89.0 11 PDB header:transcription
Chain: A: PDB Molecule:protein mrke;
PDBTitle: crystal structure of the response regulatory domain of2 protein mrke from klebsiella pneumoniae
110c3gr7A_



not modelled 88.9 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
111d1gjwa2



not modelled 88.8 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
112d1ua7a2



not modelled 88.8 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
113c3dzdA_



not modelled 88.6 14 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: crystal structure of sigma54 activator ntrc4 in the inactive2 state
114c2gjlA_



not modelled 88.5 11 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein pa1024;
PDBTitle: crystal structure of 2-nitropropane dioxygenase
115c2qzjC_



not modelled 88.5 15 PDB header:transcription
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of a two-component response regulator from2 clostridium difficile
116c3uvjC_



not modelled 88.4 8 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.
117c3hzhA_



not modelled 88.3 6 PDB header:signaling protein
Chain: A: PDB Molecule:chemotaxis response regulator (chey-3);
PDBTitle: crystal structure of the chex-chey-bef3-mg+2 complex from2 borrelia burgdorferi
118d1fx2a_



not modelled 88.3 13 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:Adenylyl and guanylyl cyclase catalytic domain
119c3ucqA_



not modelled 88.2 10 PDB header:transferase
Chain: A: PDB Molecule:amylosucrase;
PDBTitle: crystal structure of amylosucrase from deinococcus geothermalis
120c1ybuA_



not modelled 87.8 12 PDB header:hydrolase
Chain: A: PDB Molecule:lipj;
PDBTitle: mycobacterium tuberculosis adenylyl cyclase rv1900c chd, in complex2 with a substrate analog.

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