Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP76446
DateThu Jan 5 12:23:01 GMT 2012
Unique Job IDd256fa8cc1cafb26

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%
410 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  MFIRAPNFGRKLLLTCIVAGVMIAILVSCLQFLVAWHKHEVKYDTLITDVQKYLDTYFAD
Secondary structure 








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Disorder  ???????




















































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   .........70.........80.........90.........100.........110.........120
Sequence  LKSTTDRLQPLTLDTCQQANPELTARAAFSMNVRTFVLVKDKKTFCSSATGEMDIPLNEL
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   .........130.........140.........150.........160.........170.........180
Sequence  IPALDINKNVDMAILPGTPMVPNKPAIVIWYRNPLLKNSGVFAALNLNLTPSLFYSSRQE
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Disorder  ?

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?????
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   .........190.........200.........210.........220.........230.........240
Sequence  DYDGVALIIGNTALSTFSSRLMNVNELTDMPVRETKIAGIPLTVRLYADDWTWNDVWYAF
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Disorder 
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   .........250.........260.........270.........280.........290.........300
Sequence  LLGGMSGTVVGLLCYYLMSVRMRPGREIMTAIKREQFYVAYQPVVDTQALRVTGLEVLLR
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   .........310.........320.........330.........340.........350.........360
Sequence  WRHPVAGEIPPDAFINFAESQKMIVPLTQHLFELIARDAAELEKVLPVGVKFGINIAPDH
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   .........370.........380.........390.........400.........410.........420
Sequence  LHSESFKADIQKLLTSLPAHHFQIVLEITERDMLKEQEATQLFAWLHSVGVEIAIDDFGT
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   .........430.........440.........450.........460.........470.........480
Sequence  GHSALIYLERFTLDYLKIDRGFINAIGTETITSPVLDAVLTLAKRLNMLTVAEGVETPEQ
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   .........490.........500.........510........
Sequence  ARWLSERGVNFMQGYWISRPLPLDDFVRWLKKPYTPQW
Secondary structure 
















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?????
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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: 78 - 503
Aligned: 410
Modelled: 420
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: 102 - 500
Aligned: 352
Modelled: 373
Confidence: 100.0%
Identity: 18%
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: 260 - 506
Aligned: 245
Modelled: 247
Confidence: 100.0%
Identity: 21%
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 3s83 chain A

3D model

Region: 264 - 514
Aligned: 248
Modelled: 251
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 3hv9 chain A

3D model

Region: 258 - 506
Aligned: 247
Modelled: 249
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 3pfm chain A

3D model

Region: 259 - 503
Aligned: 239
Modelled: 245
Confidence: 100.0%
Identity: 24%
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: 267 - 502
Aligned: 227
Modelled: 236
Confidence: 100.0%
Identity: 20%
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: 263 - 512
Aligned: 236
Modelled: 237
Confidence: 100.0%
Identity: 28%
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: 267 - 513
Aligned: 241
Modelled: 247
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: 276 - 503
Aligned: 222
Modelled: 227
Confidence: 100.0%
Identity: 22%
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: 62 - 251
Aligned: 188
Modelled: 190
Confidence: 99.4%
Identity: 6%
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 - 250
Aligned: 159
Modelled: 172
Confidence: 99.3%
Identity: 11%
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 3i5c chain A

3D model

Region: 65 - 250
Aligned: 186
Modelled: 186
Confidence: 98.9%
Identity: 9%
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 3bre chain A

3D model

Region: 48 - 249
Aligned: 200
Modelled: 202
Confidence: 98.8%
Identity: 9%
PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702

Phyre2

PDB 3i5a chain A

3D model

Region: 48 - 248
Aligned: 199
Modelled: 201
Confidence: 98.8%
Identity: 9%
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: 91 - 249
Aligned: 159
Modelled: 159
Confidence: 98.7%
Identity: 9%
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 3ign chain A

3D model

Region: 89 - 250
Aligned: 158
Modelled: 158
Confidence: 98.6%
Identity: 11%
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 3qyy chain B

3D model

Region: 87 - 237
Aligned: 142
Modelled: 151
Confidence: 98.6%
Identity: 7%
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: 91 - 249
Aligned: 155
Modelled: 159
Confidence: 98.5%
Identity: 8%
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa

Phyre2

PDB 3icl chain A

3D model

Region: 94 - 252
Aligned: 155
Modelled: 159
Confidence: 98.5%
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
1

c3pjwA_
2

c3gfzB_
3

c3hvbB_
4

c3s83A_
5

c3hv9A_
6

c3pfmA_
7

c2w27A_
8

c2r6oB_
9

d2basa1
10

c3kzpA_
11

c1w25B_
12

c3ezuA_
13

c3i5cA_
14

c3breA_
15

c3i5aA_
16

c3i5bA_
17

c3ignA_
18

c3qyyB_
19

c3hvaA_
20

c3iclA_
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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 18 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 21 PDB header:hydrolase
Chain: B: PDB Molecule:protein fimx;
PDBTitle: crystal structure of the dual-domain ggdef-eal module of2 fimx from pseudomonas aeruginosa
4c3s83A_



100.0 28 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15
5c3hv9A_



100.0 21 PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa
6c3pfmA_



100.0 24 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 20 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 28 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 22 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_



99.4 6 PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp
12c3ezuA_



99.3 11 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
13c3i5cA_



98.9 9 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
14c3breA_



98.8 9 PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
15c3i5aA_



98.8 9 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
16c3i5bA_



98.7 9 PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
17c3ignA_



98.6 11 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
18c3qyyB_



98.6 7 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
19c3hvaA_



98.5 8 PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa
20c3iclA_



98.5 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
21c3mtkA_



not modelled 98.5 5 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 98.5 7 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
23c3hvwA_



not modelled 98.2 13 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
24d1p6qa_



not modelled 95.4 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
25c3khtA_



not modelled 95.4 16 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
26c3hebB_



not modelled 95.3 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
27d1mvoa_



not modelled 95.0 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
28c2zayA_



not modelled 94.6 14 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
29c2ayxA_



not modelled 94.3 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
30c3rqiA_



not modelled 94.3 11 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
31c3crnA_



not modelled 94.1 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
32d1w25a1



not modelled 93.9 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
33d1qkka_



not modelled 93.6 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
34d1a53a_



not modelled 93.6 22 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
35c3eulB_



not modelled 93.6 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
36c2yxbA_



not modelled 93.6 15 PDB header:isomerase
Chain: A: PDB Molecule:coenzyme b12-dependent mutase;
PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix
37c2jk1A_



not modelled 93.4 8 PDB header:dna-binding
Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1;
PDBTitle: crystal structure of the wild-type hupr receiver domain
38c3nhzA_



not modelled 93.4 15 PDB header:dna binding protein
Chain: A: PDB Molecule:two component system transcriptional regulator mtra;
PDBTitle: structure of n-terminal domain of mtra
39d1h5ya_



not modelled 93.3 18 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Histidine biosynthesis enzymes
40c3gt7A_



not modelled 93.1 13 PDB header:hydrolase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of signal receiver domain of signal2 transduction histidine kinase from syntrophus3 aciditrophicus
41c3qvqB_



not modelled 93.0 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
42d1krwa_



not modelled 92.8 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
43d1u0sy_



not modelled 92.6 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
44c2j48A_



not modelled 92.3 16 PDB header:transferase
Chain: A: PDB Molecule:two-component sensor kinase;
PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein.
45d1zesa1



not modelled 92.3 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
46d1heya_



not modelled 92.2 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
47c2pz0B_



not modelled 92.1 11 PDB header:hydrolase
Chain: B: PDB Molecule:glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphodiester phosphodiesterase (gdpd)2 from t. tengcongensis
48d1jbea_



not modelled 92.0 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
49d1xhfa1



not modelled 91.8 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
50d1k68a_



not modelled 91.7 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
51d1dbwa_



not modelled 91.5 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
52c3q58A_



not modelled 91.5 16 PDB header:isomerase
Chain: A: PDB Molecule:n-acetylmannosamine-6-phosphate 2-epimerase;
PDBTitle: structure of n-acetylmannosamine-6-phosphate epimerase from salmonella2 enterica
53c3hv2B_



not modelled 91.4 12 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
54d1k66a_



not modelled 91.4 19 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
55c3gl9B_



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
56d1i3ca_



not modelled 91.2 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
57c2zwmA_



not modelled 91.2 15 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulatory protein yycf;
PDBTitle: crystal structure of yycf receiver domain from bacillus2 subtilis
58c2p0oA_



not modelled 91.2 21 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
59c2qr3A_



not modelled 91.2 11 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
60c3c3mA_



not modelled 91.1 11 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
61d1kgsa2



not modelled 91.1 10 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
62c3cg0A_



not modelled 90.9 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
63d1ny5a1



not modelled 90.8 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
64c2c3zA_



not modelled 90.8 23 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
65c3i42A_



not modelled 90.6 18 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
66d2r25b1



not modelled 90.5 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
67d1y0ea_



not modelled 90.3 11 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
68c3b2nA_



not modelled 90.3 13 PDB header:transcription
Chain: A: PDB Molecule:uncharacterized protein q99uf4;
PDBTitle: crystal structure of dna-binding response regulator, luxr family, from2 staphylococcus aureus
69c3hdgE_



not modelled 90.3 13 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
70d1dz3a_



not modelled 90.1 17 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
71d2ayxa1



not modelled 90.1 18 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
72c2rjnA_



not modelled 90.0 14 PDB header:hydrolase
Chain: A: PDB Molecule:response regulator receiver:metal-dependent
PDBTitle: crystal structure of an uncharacterized protein q2bku2 from2 neptuniibacter caesariensis
73d1mb3a_



not modelled 89.7 22 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
74d1ys7a2



not modelled 89.7 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
75c3grcD_



not modelled 89.7 14 PDB header:transferase
Chain: D: PDB Molecule:sensor protein, kinase;
PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666
76d2pl1a1



not modelled 89.4 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
77d1yioa2



not modelled 89.4 9 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
78c3c97A_



not modelled 89.4 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
79c2h6rG_



not modelled 89.3 16 PDB header:isomerase
Chain: G: PDB Molecule:triosephosphate isomerase;
PDBTitle: crystal structure of triosephosphate isomerase (tim) from2 methanocaldococcus jannaschii
80c3cnbC_



not modelled 89.2 14 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
81c3cu5B_



not modelled 89.1 14 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
82d1a04a2



not modelled 88.9 12 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
83c3lteH_



not modelled 88.1 13 PDB header:transcription
Chain: H: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator (signal receiver domain) from2 bermanella marisrubri
84d2a9pa1



not modelled 87.9 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
85d1ua7a2



not modelled 87.5 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
86d1peya_



not modelled 87.5 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
87c1jibA_



not modelled 87.4 28 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.
88c3ffsC_



not modelled 87.4 13 PDB header:oxidoreductase
Chain: C: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: the crystal structure of cryptosporidium parvum inosine-5'-2 monophosphate dehydrogenase
89c3cg4A_



not modelled 87.3 13 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
90c3igsB_



not modelled 87.2 13 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
91c3gr7A_



not modelled 87.2 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
92c2rdmB_



not modelled 86.5 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
93c3f6cB_



not modelled 86.4 16 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
94d2d3na2



not modelled 86.0 22 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
95c2nt3A_



not modelled 85.7 10 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator homolog;
PDBTitle: receiver domain from myxococcus xanthus social motility protein frzs2 (y102a mutant)
96c2qxyB_



not modelled 85.7 14 PDB header:transcription
Chain: B: PDB Molecule:response regulator;
PDBTitle: crystal structure of a response regulator from thermotoga2 maritima
97d1dcfa_



not modelled 85.5 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:Receiver domain of the ethylene receptor
98c3cfyA_



not modelled 85.1 15 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
99d1hvxa2



not modelled 84.7 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
100d1s8na_



not modelled 84.7 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
101c2jrlA_



not modelled 84.7 15 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator (ntrc family);
PDBTitle: solution structure of the beryllofluoride-activated ntrc4 receiver2 domain dimer
102c2yw3E_



not modelled 84.6 17 PDB header:lyase
Chain: E: PDB Molecule:4-hydroxy-2-oxoglutarate aldolase/2-deydro-3-
PDBTitle: crystal structure analysis of the 4-hydroxy-2-oxoglutarate aldolase/2-2 deydro-3-deoxyphosphogluconate aldolase from tthb1
103c2y85D_



not modelled 84.4 16 PDB header:isomerase
Chain: D: PDB Molecule:phosphoribosyl isomerase a;
PDBTitle: crystal structure of mycobacterium tuberculosis phosphoribosyl2 isomerase with bound rcdrp
104d1zgza1



not modelled 84.2 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
105c1qhoA_



not modelled 84.1 14 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: five-domain alpha-amylase from bacillus stearothermophilus,2 maltose/acarbose complex
106d2guya2



not modelled 84.1 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
107d1uoka2



not modelled 84.0 27 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
108d2gjpa2



not modelled 83.8 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
109d1ob0a2



not modelled 83.8 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
110c3nhmA_



not modelled 83.7 11 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of a response regulator from myxococcus xanthus
111c2qzjC_



not modelled 83.3 11 PDB header:transcription
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of a two-component response regulator from2 clostridium difficile
112c2gjlA_



not modelled 83.2 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:hypothetical protein pa1024;
PDBTitle: crystal structure of 2-nitropropane dioxygenase
113d1mxga2



not modelled 83.2 10 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
114c1cygA_



not modelled 83.0 18 PDB header:glycosyltransferase
Chain: A: PDB Molecule:cyclodextrin glucanotransferase;
PDBTitle: cyclodextrin glucanotransferase (e.c.2.4.1.19) (cgtase)
115d1g5aa2



not modelled 82.7 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
116d1h3ga3



not modelled 82.6 20 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
117c3hdvB_



not modelled 82.4 15 PDB header:transcription regulator
Chain: B: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator receiver protein from2 pseudomonas putida
118c3luaA_



not modelled 82.4 14 PDB header:transcription regulator
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of a signal receiver domain of two component signal2 transduction (histidine kinase) from clostridium thermocellum
119d1ud2a2



not modelled 82.4 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
120d1zh2a1



not modelled 82.2 13 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related

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