Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP75990
DateThu Jan 5 12:17:01 GMT 2012
Unique Job IDeb48458616ba289e

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3gfzB_
Top template information
PDB header:hydrolase, signaling protein
Chain: B: PDB Molecule:klebsiella pneumoniae blrp1;
PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex
Confidence and coverage
Confidence:100.0% Coverage: 95%
382 residues ( 95% 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  MLTTLIYRSHIRDDEPVKKIEEMVSIANRRNMQSDVTGILLFNGSHFFQLLEGPEEQVKM
Secondary structure 
SS confidence 
Disorder  ???????
??????
???????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  IYRAICQDPRHYNIVELLCDYAPARRFGKAGMELFDLRLHERDDVLQAVFDKGTSKFQLT
Secondary structure 
SS confidence 
Disorder 
??
??
?
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  YDDRALQFFRTFVLATEQSTYFEIPAEDSWLFIADGSDKELDSCALSPTINDHFAFHPIV
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  DPLSRRIIAFEAIVQKNEDSPSAIAVGQRKDGEIYTADLKSKALAFTMAHALELGDKMIS
Secondary structure 
SS confidence 
Disorder 
?
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  INLLPMTLVNEPDAVSFLLNEIKANALVPEQIIVEFTESEVISRFDEFAEAIKSLKAAGI
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  SVAIDHFGAGFAGLLLLSRFQPDRIKISQELITNVHKSGPRQAIIQAIIKCCTSLEIQVS
Secondary structure 
SS confidence 
Disorder 
???
??
Disorder confidence 
 
   .........370.........380.........390.........400...
Sequence  AMGVATPEEWMWLESAGIEMFQGDLFAKAKLNGIPSIAWPEKK
Secondary structure 
SS confidence 
Disorder 
?
??????
Disorder confidence 
 

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 3gfz chain B

3D model

Region: 1 - 400
Aligned: 382
Modelled: 400
Confidence: 100.0%
Identity: 37%
PDB header:hydrolase, signaling protein
Chain: B: PDB Molecule:klebsiella pneumoniae blrp1;
PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex

Phyre2

PDB 3pjw chain A

3D model

Region: 2 - 396
Aligned: 379
Modelled: 395
Confidence: 100.0%
Identity: 17%
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 3hvb chain B

3D model

Region: 158 - 399
Aligned: 236
Modelled: 242
Confidence: 100.0%
Identity: 15%
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: 149 - 399
Aligned: 245
Modelled: 251
Confidence: 100.0%
Identity: 15%
PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa

Phyre2

PDB 2w27 chain A

3D model

Region: 163 - 402
Aligned: 234
Modelled: 240
Confidence: 100.0%
Identity: 15%
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 3s83 chain A

3D model

Region: 161 - 401
Aligned: 233
Modelled: 237
Confidence: 100.0%
Identity: 22%
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: 155 - 391
Aligned: 232
Modelled: 234
Confidence: 100.0%
Identity: 18%
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 2bas chain A domain 1

3D model

Region: 163 - 399
Aligned: 231
Modelled: 237
Confidence: 100.0%
Identity: 14%
Fold: TIM beta/alpha-barrel
Superfamily: EAL domain-like
Family: EAL domain

Phyre2

PDB 2r6o chain B

3D model

Region: 160 - 389
Aligned: 221
Modelled: 226
Confidence: 100.0%
Identity: 23%
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 3kzp chain A

3D model

Region: 171 - 389
Aligned: 216
Modelled: 218
Confidence: 100.0%
Identity: 18%
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 3ezu chain A

3D model

Region: 2 - 146
Aligned: 136
Modelled: 140
Confidence: 99.8%
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 1w25 chain B

3D model

Region: 2 - 148
Aligned: 139
Modelled: 147
Confidence: 99.8%
Identity: 13%
PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp

Phyre2

PDB 1w25 chain A domain 3

3D model

Region: 2 - 149
Aligned: 140
Modelled: 148
Confidence: 99.6%
Identity: 14%
Fold: Ferredoxin-like
Superfamily: Nucleotide cyclase
Family: GGDEF domain

Phyre2

PDB 3icl chain A

3D model

Region: 2 - 149
Aligned: 140
Modelled: 148
Confidence: 99.5%
Identity: 12%
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 3bre chain A

3D model

Region: 2 - 149
Aligned: 140
Modelled: 148
Confidence: 99.5%
Identity: 14%
PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702

Phyre2

PDB 3i5b chain A

3D model

Region: 1 - 148
Aligned: 140
Modelled: 148
Confidence: 99.5%
Identity: 12%
PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa

Phyre2

PDB 2kb2 chain A

3D model

Region: 1 - 134
Aligned: 134
Modelled: 134
Confidence: 99.4%
Identity: 42%
PDB header:signaling protein, hydrolase regulator
Chain: A: PDB Molecule:blrp1;
PDBTitle: blrp1 bluf

Phyre2

PDB 3qyy chain B

3D model

Region: 2 - 146
Aligned: 137
Modelled: 136
Confidence: 99.4%
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 3ign chain A

3D model

Region: 2 - 146
Aligned: 137
Modelled: 145
Confidence: 99.4%
Identity: 12%
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 3hva chain A

3D model

Region: 1 - 145
Aligned: 137
Modelled: 145
Confidence: 99.4%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa

Phyre2
1
c3gfzB_
2
c3pjwA_
3
c3hvbB_
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c3hv9A_
5
c2w27A_
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c3s83A_
7
c3pfmA_
8
d2basa1
9
c2r6oB_
10
c3kzpA_
11
c3ezuA_
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c1w25B_
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d1w25a3
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c3iclA_
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c3breA_
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c3i5bA_
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c2kb2A_
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c3qyyB_
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c3ignA_
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c3hvaA_
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Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3gfzB_
100.0 37 PDB header:hydrolase, signaling protein
Chain: B: PDB Molecule:klebsiella pneumoniae blrp1;
PDBTitle: klebsiella pneumoniae blrp1 ph 6 manganese/cy-digmp complex
2c3pjwA_
100.0 17 PDB header:lyase
Chain: A: PDB Molecule:cyclic dimeric gmp binding protein;
PDBTitle: structure of pseudomonas fluorescence lapd ggdef-eal dual domain, i23
3c3hvbB_
100.0 15 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 15 PDB header:hydrolase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx eal domain from pseudomonas aeruginosa
5c2w27A_
100.0 15 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
6c3s83A_
100.0 22 PDB header:signaling protein
Chain: A: PDB Molecule:ggdef family protein;
PDBTitle: crystal structure of eal domain from caulobacter crescentus cb15
7c3pfmA_
100.0 18 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
8d2basa1
100.0 14 Fold:TIM beta/alpha-barrel
Superfamily:EAL domain-like
Family:EAL domain
9c2r6oB_
100.0 23 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
10c3kzpA_
100.0 18 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
11c3ezuA_
99.8 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
12c1w25B_
99.8 13 PDB header:signaling protein
Chain: B: PDB Molecule:stalked-cell differentiation controlling protein;
PDBTitle: response regulator pled in complex with c-digmp
13d1w25a3
99.6 14 Fold:Ferredoxin-like
Superfamily:Nucleotide cyclase
Family:GGDEF domain
14c3iclA_
99.5 12 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
15c3breA_
99.5 14 PDB header:signaling protein
Chain: A: PDB Molecule:probable two-component response regulator;
PDBTitle: crystal structure of p.aeruginosa pa3702
16c3i5bA_
99.5 12 PDB header:signaling protein
Chain: A: PDB Molecule:wspr response regulator;
PDBTitle: crystal structure of the isolated ggdef domain of wpsr from2 pseudomonas aeruginosa
17c2kb2A_
99.4 42 PDB header:signaling protein, hydrolase regulator
Chain: A: PDB Molecule:blrp1;
PDBTitle: blrp1 bluf
18c3qyyB_
99.4 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
19c3ignA_
99.4 12 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
20c3hvaA_
99.4 12 PDB header:transferase
Chain: A: PDB Molecule:protein fimx;
PDBTitle: crystal structure of fimx ggdef domain from pseudomonas2 aeruginosa
21d2buna1
not modelled 99.3 28 Fold:Ferredoxin-like
Superfamily:Acylphosphatase/BLUF domain-like
Family:BLUF domain
22c3i5aA_
not modelled 99.3 13 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator/ggdef domain protein;
PDBTitle: crystal structure of full-length wpsr from pseudomonas syringae
23c2hfnJ_
not modelled 99.3 29 PDB header:electron transport
Chain: J: PDB Molecule:synechocystis photoreceptor (slr1694);
PDBTitle: crystal structures of the synechocystis photoreceptor slr1694 reveal2 distinct structural states related to signaling
24c3i5cA_
not modelled 99.3 10 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
25d1x0pa1
not modelled 99.3 28 Fold:Ferredoxin-like
Superfamily:Acylphosphatase/BLUF domain-like
Family:BLUF domain
26d2byca1
not modelled 99.3 38 Fold:Ferredoxin-like
Superfamily:Acylphosphatase/BLUF domain-like
Family:BLUF domain
27c3mtkA_
not modelled 99.2 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
28d1yrxa1
not modelled 99.2 27 Fold:Ferredoxin-like
Superfamily:Acylphosphatase/BLUF domain-like
Family:BLUF domain
29c3hvwA_
not modelled 98.7 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
30d1ua7a2
not modelled 94.6 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
31d1gjwa2
not modelled 93.4 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
32c1qhoA_
not modelled 93.4 14 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: five-domain alpha-amylase from bacillus stearothermophilus,2 maltose/acarbose complex
33c3edeB_
not modelled 92.3 7 PDB header:hydrolase
Chain: B: PDB Molecule:cyclomaltodextrinase;
PDBTitle: structural base for cyclodextrin hydrolysis
34c3khtA_
not modelled 92.2 14 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator;
PDBTitle: crystal structure of response regulator from hahella chejuensis
35c2p0oA_
not modelled 91.6 15 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
36d1y0ea_
not modelled 91.4 19 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:NanE-like
37d1kkoa1
not modelled 91.0 7 Fold:TIM beta/alpha-barrel
Superfamily:Enolase C-terminal domain-like
Family:D-glucarate dehydratase-like
38d1h3ga3
not modelled 90.9 7 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
39d2guya2
not modelled 90.7 9 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
40d1a53a_
not modelled 90.6 16 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
41c1cygA_
not modelled 90.3 12 PDB header:glycosyltransferase
Chain: A: PDB Molecule:cyclodextrin glucanotransferase;
PDBTitle: cyclodextrin glucanotransferase (e.c.2.4.1.19) (cgtase)
42c2c3zA_
not modelled 90.2 16 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
43c1jibA_
not modelled 89.9 11 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.
44d1lwha2
not modelled 89.8 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
45c3q58A_
not modelled 89.7 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
46c1bagA_
not modelled 89.7 12 PDB header:alpha-amylase
Chain: A: PDB Molecule:alpha-1,4-glucan-4-glucanohydrolase;
PDBTitle: alpha-amylase from bacillus subtilis complexed with2 maltopentaose
47d1qhoa4
not modelled 89.7 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
48d2aaaa2
not modelled 89.6 8 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
49c1tcmB_
not modelled 89.1 18 PDB header:glycosyltransferase
Chain: B: PDB Molecule:cyclodextrin glycosyltransferase;
PDBTitle: cyclodextrin glycosyltransferase w616a mutant from bacillus2 circulans strain 251
50c1lwhA_
not modelled 88.7 18 PDB header:transferase
Chain: A: PDB Molecule:4-alpha-glucanotransferase;
PDBTitle: crystal structure of t. maritima 4-alpha-glucanotransferase
51c3igsB_
not modelled 88.6 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
52c3czkA_
not modelled 88.6 16 PDB header:hydrolase
Chain: A: PDB Molecule:sucrose hydrolase;
PDBTitle: crystal structure analysis of sucrose hydrolase(suh) e322q-2 sucrose complex
53d1gcya2
not modelled 88.5 13 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
54c3bmwA_
not modelled 88.3 14 PDB header:transferase
Chain: A: PDB Molecule:cyclomaltodextrin glucanotransferase;
PDBTitle: cyclodextrin glycosyl transferase from thermoanerobacterium2 thermosulfurigenes em1 mutant s77p complexed with a maltoheptaose3 inhibitor
55c1gjuA_
not modelled 88.3 12 PDB header:transferase
Chain: A: PDB Molecule:maltodextrin glycosyltransferase;
PDBTitle: maltosyltransferase from thermotoga maritima
56c1jdaA_
not modelled 88.0 13 PDB header:hydrolase
Chain: A: PDB Molecule:1,4-alpha maltotetrahydrolase;
PDBTitle: maltotetraose-forming exo-amylase
57d1z41a1
not modelled 87.7 10 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
58c2wcsA_
not modelled 87.6 14 PDB header:hydrolase
Chain: A: PDB Molecule:alpha amylase, catalytic region;
PDBTitle: crystal structure of debranching enzyme from nostoc2 punctiforme (npde)
59c2aaaA_
not modelled 87.4 7 PDB header:glycosidase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: calcium binding in alpha-amylases: an x-ray diffraction2 study at 2.1 angstroms resolution of two enzymes from3 aspergillus
60c2h6rG_
not modelled 87.2 11 PDB header:isomerase
Chain: G: PDB Molecule:triosephosphate isomerase;
PDBTitle: crystal structure of triosephosphate isomerase (tim) from2 methanocaldococcus jannaschii
61d1ht6a2
not modelled 86.3 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
62c1jgiA_
not modelled 86.2 8 PDB header:transferase
Chain: A: PDB Molecule:amylosucrase;
PDBTitle: crystal structure of the active site mutant glu328gln of2 amylosucrase from neisseria polysaccharea in complex with3 the natural substrate sucrose
63d1bf2a3
not modelled 85.9 15 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
64c3hebB_
not modelled 85.3 15 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
65d1g5aa2
not modelled 85.2 8 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
66c1gcyA_
not modelled 85.2 13 PDB header:hydrolase
Chain: A: PDB Molecule:glucan 1,4-alpha-maltotetrahydrolase;
PDBTitle: high resolution crystal structure of maltotetraose-forming2 exo-amylase
67d1p6qa_
not modelled 85.2 11 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
68c3k8kB_
not modelled 84.8 10 PDB header:membrane protein
Chain: B: PDB Molecule:alpha-amylase, susg;
PDBTitle: crystal structure of susg
69d1mvoa_
not modelled 84.7 14 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
70d1cxla4
not modelled 83.8 18 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
71c1zjaB_
not modelled 83.7 14 PDB header:isomerase
Chain: B: PDB Molecule:trehalulose synthase;
PDBTitle: crystal structure of the trehalulose synthase mutb from2 pseudomonas mesoacidophila mx-45 (triclinic form)
72d1wzla3
not modelled 83.6 11 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
73c2zayA_
not modelled 83.5 21 PDB header:signaling protein
Chain: A: PDB Molecule:response regulator receiver protein;
PDBTitle: crystal structure of response regulator from desulfuromonas2 acetoxidans
74c2jk1A_
not modelled 83.4 11 PDB header:dna-binding
Chain: A: PDB Molecule:hydrogenase transcriptional regulatory protein hupr1;
PDBTitle: crystal structure of the wild-type hupr receiver domain
75d1pama4
not modelled 83.1 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
76d1eh9a3
not modelled 82.8 13 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
77c1gviA_
not modelled 82.7 15 PDB header:hydrolase
Chain: A: PDB Molecule:maltogenic amylase;
PDBTitle: thermus maltogenic amylase in complex with beta-cd
78c3q94B_
not modelled 82.7 15 PDB header:lyase
Chain: B: PDB Molecule:fructose-bisphosphate aldolase, class ii;
PDBTitle: the crystal structure of fructose 1,6-bisphosphate aldolase from2 bacillus anthracis str. 'ames ancestor'
79c3kruC_
not modelled 82.6 18 PDB header:oxidoreductase
Chain: C: PDB Molecule:nadh:flavin oxidoreductase/nadh oxidase;
PDBTitle: crystal structure of the thermostable old yellow enzyme from2 thermoanaerobacter pseudethanolicus e39
80c3ffsC_
not modelled 82.5 17 PDB header:oxidoreductase
Chain: C: PDB Molecule:inosine-5-monophosphate dehydrogenase;
PDBTitle: the crystal structure of cryptosporidium parvum inosine-5'-2 monophosphate dehydrogenase
81d3bmva4
not modelled 82.3 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
82d1cgta4
not modelled 82.1 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
83c3dhuC_
not modelled 81.4 17 PDB header:hydrolase
Chain: C: PDB Molecule:alpha-amylase;
PDBTitle: crystal structure of an alpha-amylase from lactobacillus2 plantarum
84c2z1kA_
not modelled 81.3 15 PDB header:hydrolase
Chain: A: PDB Molecule:(neo)pullulanase;
PDBTitle: crystal structure of ttha1563 from thermus thermophilus hb8
85d1krwa_
not modelled 81.1 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
86c2pz0B_
not modelled 81.0 15 PDB header:hydrolase
Chain: B: PDB Molecule:glycerophosphoryl diester phosphodiesterase;
PDBTitle: crystal structure of glycerophosphodiester phosphodiesterase (gdpd)2 from t. tengcongensis
87c3gr7A_
not modelled 80.9 9 PDB header:oxidoreductase
Chain: A: PDB Molecule:nadph dehydrogenase;
PDBTitle: structure of oye from geobacillus kaustophilus, hexagonal2 crystal form
88c2ya0A_
not modelled 80.8 15 PDB header:hydrolase
Chain: A: PDB Molecule:putative alkaline amylopullulanase;
PDBTitle: catalytic module of the multi-modular glycogen-degrading2 pneumococcal virulence factor spua
89c1m53A_
not modelled 80.5 13 PDB header:isomerase
Chain: A: PDB Molecule:isomaltulose synthase;
PDBTitle: crystal structure of isomaltulose synthase (pali) from2 klebsiella sp. lx3
90d1m53a2
not modelled 80.5 13 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
91c2ze0A_
not modelled 79.4 16 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-glucosidase;
PDBTitle: alpha-glucosidase gsj
92d1heya_
not modelled 78.6 16 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
93d1w25a1
not modelled 78.6 15 Fold:Flavodoxin-like
Superfamily:CheY-like
Family:CheY-related
94d1avaa2
not modelled 78.2 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
95c2wskA_
not modelled 77.6 13 PDB header:hydrolase
Chain: A: PDB Molecule:glycogen debranching enzyme;
PDBTitle: crystal structure of glycogen debranching enzyme glgx from2 escherichia coli k-12
96d1ea9c3
not modelled 77.6 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
97c1ea9D_
not modelled 77.2 14 PDB header:hydrolase
Chain: D: PDB Molecule:cyclomaltodextrinase;
PDBTitle: cyclomaltodextrinase
98d1vhna_
not modelled 77.1 11 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases
99c2qpuB_
not modelled 76.9 14 PDB header:hydrolase
Chain: B: PDB Molecule:alpha-amylase type a isozyme;
PDBTitle: sugar tongs mutant s378p in complex with acarbose
100d1xm3a_
not modelled 76.5 15 Fold:TIM beta/alpha-barrel
Superfamily:ThiG-like
Family:ThiG-like
101d1j0ha3
not modelled 76.5 14 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
102c3a47A_
not modelled 76.0 13 PDB header:hydrolase
Chain: A: PDB Molecule:oligo-1,6-glucosidase;
PDBTitle: crystal structure of isomaltase from saccharomyces cerevisiae
103c1jd7A_
not modelled 75.2 10 PDB header:hydrolase
Chain: A: PDB Molecule:alpha-amylase;
PDBTitle: crystal structure analysis of the mutant k300r of2 pseudoalteromonas haloplanctis alpha-amylase
104d1uoka2
not modelled 75.0 17 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
105d2bhua3
not modelled 74.9 16 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
106c3ch0A_
not modelled 74.9 27 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
107d1w0ma_
not modelled 74.5 9 Fold:TIM beta/alpha-barrel
Superfamily:Triosephosphate isomerase (TIM)
Family:Triosephosphate isomerase (TIM)
108c1bf2A_
not modelled 74.1 14 PDB header:hydrolase
Chain: A: PDB Molecule:isoamylase;
PDBTitle: structure of pseudomonas isoamylase
109c2otdC_
not modelled 74.1 15 PDB header:hydrolase
Chain: C: PDB Molecule:glycerophosphodiester phosphodiesterase;
PDBTitle: the crystal structure of the glycerophosphodiester phosphodiesterase2 from shigella flexneri 2a
110d1cyga4
not modelled 74.0 12 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
111d1rd5a_
not modelled 73.5 8 Fold:TIM beta/alpha-barrel
Superfamily:Ribulose-phoshate binding barrel
Family:Tryptophan biosynthesis enzymes
112c2by0A_
not modelled 73.3 16 PDB header:hydrolase
Chain: A: PDB Molecule:maltooligosyltrehalose trehalohydrolase;
PDBTitle: is radiation damage dependent on the dose-rate used during2 macromolecular crystallography data collection
113c2iswB_
not modelled 73.1 12 PDB header:lyase
Chain: B: PDB Molecule:putative fructose-1,6-bisphosphate aldolase;
PDBTitle: structure of giardia fructose-1,6-biphosphate aldolase in2 complex with phosphoglycolohydroxamate
114c3ozbF_
not modelled 72.8 25 PDB header:transferase
Chain: F: PDB Molecule:methylthioadenosine phosphorylase;
PDBTitle: crystal structure of 5'-methylthioinosine phosphorylase from2 psedomonas aeruginosa in complex with hypoxanthine
115d1m7xa3
not modelled 72.5 8 Fold:TIM beta/alpha-barrel
Superfamily:(Trans)glycosidases
Family:Amylase, catalytic domain
116c3qvqB_
not modelled 72.5 10 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
117d1cb0a_
not modelled 72.4 13 Fold:Phosphorylase/hydrolase-like
Superfamily:Purine and uridine phosphorylases
Family:Purine and uridine phosphorylases
118d1qyia_
not modelled 72.2 15 Fold:HAD-like
Superfamily:HAD-like
Family:Hypothetical protein MW1667 (SA1546)
119c3m07A_
not modelled 72.0 14 PDB header:unknown function
Chain: A: PDB Molecule:putative alpha amylase;
PDBTitle: 1.4 angstrom resolution crystal structure of putative alpha2 amylase from salmonella typhimurium.
120d1ps9a1
not modelled 70.6 9 Fold:TIM beta/alpha-barrel
Superfamily:FMN-linked oxidoreductases
Family:FMN-linked oxidoreductases

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