Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AA93
DateThu Jan 5 11:12:15 GMT 2012
Unique Job ID4dfabfae8b7a6478

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c2c2aA_
Top template information
PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase;
PDBTitle: structure of the entire cytoplasmic portion of a sensor2 histidine kinase protein
Confidence and coverage
Confidence:100.0% Coverage: 37%
208 residues ( 37% 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.
362 residues ( 64%) 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  MHEIFNMLLAVFDRAALMLICLFFLIRIRLFRELLHKSAHSPKELLAVTAIFSLFALFST
Secondary structure 
SS confidence 
Disorder  ???
?????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  WSGVPVEGSLVNVRIIAVMSGGILFGPWVGIITGVIAGIHRYLIDIGGVTAIPCFITSIL
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  AGCISGWINLKIPKAQRWRVGILGGMLCETLTMILVIVWAPTTALGIDIVSKIGIPMILG
Secondary structure 
SS confidence 
Disorder 
?
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  SVCIGFIVLLVQSVEGEKEASAARQAKLALDIANKTLPLFRHVNSESLRKVCEIIRDDIH
Secondary structure 
SS confidence 
Disorder 
????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  ADAVAITNTDHVLAYVGVGEHNYQNGDDFISPTTRQAMNYGKIIIKNNDEAHRTPEIHSM
Secondary structure 
SS confidence 
Disorder 
??
?
?
??
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.........360
Sequence  LVIPLWEKGVVTGTLKIYYCHAHQITSSLQEMAVGLSQIISTQLEVSRAEQLREMANKAE
Secondary structure 
SS confidence 
Disorder  ?
??
?
??
Disorder confidence 
 
   .........370.........380.........390.........400.........410.........420
Sequence  LRALQSKINPHFLFNALNAISSSIRLNPDTARQLIFNLSRYLRYNIELKDDEQIDIKKEL
Secondary structure 
SS confidence 
Disorder 
??
??
Disorder confidence 
 
   .........430.........440.........450.........460.........470.........480
Sequence  YQIKDYIAIEQARFGDKLTVIYDIDEEVNCCIPSLLIQPLVENAIVHGIQPCKGKGVVTI
Secondary structure 
SS confidence 
Disorder 
??
Disorder confidence 
 
   .........490.........500.........510.........520.........530.........540
Sequence  SVAECGNRVRIAVRDTGHGIDPKVIERVEANEMPGNKIGLLNVHHRVKLLYGEGLHIRRL
Secondary structure 
SS confidence 
Disorder 
????????
??
?
Disorder confidence 
 
   .........550.........560.....
Sequence  EPGTEIAFYIPNQRTPVASQATLLL
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 2c2a chain A

3D model

Region: 347 - 554
Aligned: 208
Modelled: 208
Confidence: 100.0%
Identity: 20%
PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase;
PDBTitle: structure of the entire cytoplasmic portion of a sensor2 histidine kinase protein

Phyre2

PDB 2q8f chain A

3D model

Region: 359 - 564
Aligned: 204
Modelled: 206
Confidence: 100.0%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1;
PDBTitle: structure of pyruvate dehydrogenase kinase isoform 1

Phyre2

PDB 3d2r chain B

3D model

Region: 359 - 563
Aligned: 205
Modelled: 205
Confidence: 100.0%
Identity: 12%
PDB header:transferase
Chain: B: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 4;
PDBTitle: crystal structure of pyruvate dehydrogenase kinase isoform 4 in2 complex with adp

Phyre2

PDB 1y8o chain A

3D model

Region: 359 - 563
Aligned: 205
Modelled: 205
Confidence: 100.0%
Identity: 11%
PDB header:transferase
Chain: A: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 3;
PDBTitle: crystal structure of the pdk3-l2 complex

Phyre2

PDB 3d36 chain B

3D model

Region: 362 - 552
Aligned: 186
Modelled: 191
Confidence: 100.0%
Identity: 19%
PDB header:transferase/transferase inhibitor
Chain: B: PDB Molecule:sporulation kinase b;
PDBTitle: how to switch off a histidine kinase: crystal structure of2 geobacillus stearothermophilus kinb with the inhibitor sda

Phyre2

PDB 2bu8 chain A

3D model

Region: 360 - 563
Aligned: 204
Modelled: 204
Confidence: 100.0%
Identity: 12%
PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase kinase isoenzyme 2;
PDBTitle: crystal structures of human pyruvate dehydrogenase kinase 22 containing physiological and synthetic ligands

Phyre2

PDB 1gjv chain A

3D model

Region: 334 - 557
Aligned: 224
Modelled: 224
Confidence: 100.0%
Identity: 13%
PDB header:transferase
Chain: A: PDB Molecule:[3-methyl-2-oxobutanoate dehydrogenase
PDBTitle: branched-chain alpha-ketoacid dehydrogenase kinase (bck)2 complxed with atp-gamma-s

Phyre2

PDB 3a0r chain A

3D model

Region: 233 - 556
Aligned: 316
Modelled: 324
Confidence: 100.0%
Identity: 10%
PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of histidine kinase thka (tm1359) in complex with2 response regulator protein trra (tm1360)

Phyre2

PDB 2c2a chain A domain 2

3D model

Region: 408 - 554
Aligned: 147
Modelled: 147
Confidence: 99.9%
Identity: 19%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: Histidine kinase

Phyre2

PDB 1b3q chain A

3D model

Region: 370 - 556
Aligned: 181
Modelled: 185
Confidence: 99.9%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:protein (chemotaxis protein chea);
PDBTitle: crystal structure of chea-289, a signal transducing histidine kinase

Phyre2

PDB 3a0t chain A

3D model

Region: 409 - 555
Aligned: 146
Modelled: 147
Confidence: 99.9%
Identity: 14%
PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: catalytic domain of histidine kinase thka (tm1359) in2 complex with adp and mg ion (trigonal)

Phyre2

PDB 1gkz chain A domain 2

3D model

Region: 414 - 552
Aligned: 139
Modelled: 139
Confidence: 99.9%
Identity: 17%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: alpha-ketoacid dehydrogenase kinase, C-terminal domain

Phyre2

PDB 1id0 chain A

3D model

Region: 411 - 553
Aligned: 139
Modelled: 143
Confidence: 99.9%
Identity: 19%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: Histidine kinase

Phyre2

PDB 1jm6 chain A domain 2

3D model

Region: 414 - 563
Aligned: 150
Modelled: 150
Confidence: 99.9%
Identity: 15%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: alpha-ketoacid dehydrogenase kinase, C-terminal domain

Phyre2

PDB 2ch4 chain A

3D model

Region: 411 - 555
Aligned: 145
Modelled: 145
Confidence: 99.9%
Identity: 19%
PDB header:transferase/chemotaxis
Chain: A: PDB Molecule:chemotaxis protein chea;
PDBTitle: complex between bacterial chemotaxis histidine kinase chea2 domains p4 and p5 and receptor-adaptor protein chew

Phyre2

PDB 1i58 chain A

3D model

Region: 413 - 552
Aligned: 140
Modelled: 139
Confidence: 99.9%
Identity: 21%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: Histidine kinase

Phyre2

PDB 1bxd chain A

3D model

Region: 408 - 562
Aligned: 147
Modelled: 155
Confidence: 99.9%
Identity: 21%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: Histidine kinase

Phyre2

PDB 1ysr chain A domain 1

3D model

Region: 410 - 552
Aligned: 134
Modelled: 142
Confidence: 99.9%
Identity: 21%
Fold: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily: ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family: Histidine kinase

Phyre2

PDB 3jz3 chain B

3D model

Region: 384 - 552
Aligned: 145
Modelled: 150
Confidence: 99.9%
Identity: 21%
PDB header:transferase
Chain: B: PDB Molecule:sensor protein qsec;
PDBTitle: structure of the cytoplasmic segment of histidine kinase qsec

Phyre2

PDB 3gie chain A

3D model

Region: 338 - 551
Aligned: 192
Modelled: 197
Confidence: 99.8%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase desk;
PDBTitle: crystal structure of deskc_h188e in complex with amp-pcp

Phyre2

PDB 1vhm chain B

3D model

Region: 203 - 351
Aligned: 149
Modelled: 149
Confidence: 94.2%
Identity: 12%
PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein yebr;
PDBTitle: crystal structure of an hypothetical protein

Phyre2

PDB 3mf0 chain A

3D model

Region: 171 - 357
Aligned: 187
Modelled: 187
Confidence: 80.0%
Identity: 9%
PDB header:hydrolase
Chain: A: PDB Molecule:cgmp-specific 3',5'-cyclic phosphodiesterase;
PDBTitle: crystal structure of pde5a gaf domain (89-518)

Phyre2
1
c2c2aA_
2
c2q8fA_
3
c3d2rB_
4
c1y8oA_
5
c3d36B_
6
c2bu8A_
7
c1gjvA_
8
c3a0rA_
9
d2c2aa2
10
c1b3qA_
11
c3a0tA_
12
d1gkza2
13
d1id0a_
14
d1jm6a2
15
c2ch4A_
16
d1i58a_
17
d1bxda_
18
d1ysra1
19
c3jz3B_
20
c3gieA_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
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46
47
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49
50
51
52
53
54
55
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61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
c1vhmB_
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
c3mf0A_
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
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129
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133
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135
136



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c2c2aA_
100.0 20 PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase;
PDBTitle: structure of the entire cytoplasmic portion of a sensor2 histidine kinase protein
2c2q8fA_
100.0 12 PDB header:transferase
Chain: A: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 1;
PDBTitle: structure of pyruvate dehydrogenase kinase isoform 1
3c3d2rB_
100.0 12 PDB header:transferase
Chain: B: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 4;
PDBTitle: crystal structure of pyruvate dehydrogenase kinase isoform 4 in2 complex with adp
4c1y8oA_
100.0 11 PDB header:transferase
Chain: A: PDB Molecule:[pyruvate dehydrogenase [lipoamide]] kinase isozyme 3;
PDBTitle: crystal structure of the pdk3-l2 complex
5c3d36B_
100.0 19 PDB header:transferase/transferase inhibitor
Chain: B: PDB Molecule:sporulation kinase b;
PDBTitle: how to switch off a histidine kinase: crystal structure of2 geobacillus stearothermophilus kinb with the inhibitor sda
6c2bu8A_
100.0 12 PDB header:transferase
Chain: A: PDB Molecule:pyruvate dehydrogenase kinase isoenzyme 2;
PDBTitle: crystal structures of human pyruvate dehydrogenase kinase 22 containing physiological and synthetic ligands
7c1gjvA_
100.0 13 PDB header:transferase
Chain: A: PDB Molecule:[3-methyl-2-oxobutanoate dehydrogenase
PDBTitle: branched-chain alpha-ketoacid dehydrogenase kinase (bck)2 complxed with atp-gamma-s
8c3a0rA_
100.0 10 PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of histidine kinase thka (tm1359) in complex with2 response regulator protein trra (tm1360)
9d2c2aa2
99.9 19 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
10c1b3qA_
99.9 17 PDB header:transferase
Chain: A: PDB Molecule:protein (chemotaxis protein chea);
PDBTitle: crystal structure of chea-289, a signal transducing histidine kinase
11c3a0tA_
99.9 14 PDB header:transferase
Chain: A: PDB Molecule:sensor protein;
PDBTitle: catalytic domain of histidine kinase thka (tm1359) in2 complex with adp and mg ion (trigonal)
12d1gkza2
99.9 17 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:alpha-ketoacid dehydrogenase kinase, C-terminal domain
13d1id0a_
99.9 19 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
14d1jm6a2
99.9 15 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:alpha-ketoacid dehydrogenase kinase, C-terminal domain
15c2ch4A_
99.9 19 PDB header:transferase/chemotaxis
Chain: A: PDB Molecule:chemotaxis protein chea;
PDBTitle: complex between bacterial chemotaxis histidine kinase chea2 domains p4 and p5 and receptor-adaptor protein chew
16d1i58a_
99.9 21 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
17d1bxda_
99.9 21 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
18d1ysra1
99.9 21 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
19c3jz3B_
99.9 21 PDB header:transferase
Chain: B: PDB Molecule:sensor protein qsec;
PDBTitle: structure of the cytoplasmic segment of histidine kinase qsec
20c3gieA_
99.8 17 PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase desk;
PDBTitle: crystal structure of deskc_h188e in complex with amp-pcp
21d1r62a_
not modelled 99.8 20 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
22c3ehgA_
not modelled 99.7 20 PDB header:transferase
Chain: A: PDB Molecule:sensor kinase (yocf protein);
PDBTitle: crystal structure of the atp-binding domain of desk in complex with2 atp
23c3zxqA_
not modelled 99.6 21 PDB header:transferase
Chain: A: PDB Molecule:hypoxia sensor histidine kinase response regulator dost;
PDBTitle: crystal structure of the atp-binding domain of mycobacterium2 tuberculosis dost
24d2hkja3
not modelled 99.6 12 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
25c3zxoB_
not modelled 99.5 20 PDB header:transferase
Chain: B: PDB Molecule:redox sensor histidine kinase response regulator devs;
PDBTitle: crystal structure of the mutant atp-binding domain of2 mycobacterium tuberculosis doss
26d1ixma_
not modelled 99.5 12 Fold:Sporulation response regulatory protein Spo0B
Superfamily:Sporulation response regulatory protein Spo0B
Family:Sporulation response regulatory protein Spo0B
27c2zbkB_
not modelled 99.5 14 PDB header:isomerase
Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b;
PDBTitle: crystal structure of an intact type ii dna topoisomerase:2 insights into dna transfer mechanisms
28c1mx0D_
not modelled 99.4 13 PDB header:isomerase
Chain: D: PDB Molecule:type ii dna topoisomerase vi subunit b;
PDBTitle: structure of topoisomerase subunit
29c2q2eB_
not modelled 99.4 17 PDB header:isomerase
Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b;
PDBTitle: crystal structure of the topoisomerase vi holoenzyme from2 methanosarcina mazei
30d1th8a_
not modelled 99.4 23 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Histidine kinase
31d1y8oa2
not modelled 99.3 13 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:alpha-ketoacid dehydrogenase kinase, C-terminal domain
32d1h7sa2
not modelled 99.3 10 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
33d1bkna2
not modelled 99.2 19 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
34d1b63a2
not modelled 99.0 17 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
35c3na3A_
not modelled 98.5 16 PDB header:protein binding
Chain: A: PDB Molecule:dna mismatch repair protein mlh1;
PDBTitle: mutl protein homolog 1 isoform 1 from homo sapiens
36c3h4lB_
not modelled 98.2 19 PDB header:dna binding protein, protein binding
Chain: B: PDB Molecule:dna mismatch repair protein pms1;
PDBTitle: crystal structure of n terminal domain of a dna repair protein
37c1bknA_
not modelled 98.1 22 PDB header:dna repair
Chain: A: PDB Molecule:mutl;
PDBTitle: crystal structure of an n-terminal 40kd fragment of e. coli2 dna mismatch repair protein mutl
38c1ea6A_
not modelled 98.0 18 PDB header:dna repair
Chain: A: PDB Molecule:pms1 protein homolog 2;
PDBTitle: n-terminal 40kda fragment of nhpms2 complexed with adp
39d1ei1a2
not modelled 98.0 19 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
40d1kija2
not modelled 97.8 15 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
41c1y4sA_
not modelled 97.8 16 PDB header:chaperone
Chain: A: PDB Molecule:chaperone protein htpg;
PDBTitle: conformation rearrangement of heat shock protein 90 upon2 adp binding
42d1pvga2
not modelled 97.7 16 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
43d2iwxa1
not modelled 97.7 14 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Heat shock protein 90, HSP90, N-terminal domain
44d2c2aa1
not modelled 97.7 23 Fold:ROP-like
Superfamily:Homodimeric domain of signal transducing histidine kinase
Family:Homodimeric domain of signal transducing histidine kinase
45c2o1uA_
not modelled 97.6 17 PDB header:chaperone
Chain: A: PDB Molecule:endoplasmin;
PDBTitle: structure of full length grp94 with amp-pnp bound
46c1zwhA_
not modelled 97.6 14 PDB header:chaperone
Chain: A: PDB Molecule:atp-dependent molecular chaperone hsp82;
PDBTitle: yeast hsp82 in complex with the novel hsp90 inhibitor radester amine
47c3ke6A_
not modelled 97.6 32 PDB header:unknown function
Chain: A: PDB Molecule:protein rv1364c/mt1410;
PDBTitle: the crystal structure of the rsbu and rsbw domains of rv1364c from2 mycobacterium tuberculosis
48c1ei1B_
not modelled 97.5 20 PDB header:isomerase
Chain: B: PDB Molecule:dna gyrase b;
PDBTitle: dimerization of e. coli dna gyrase b provides a structural mechanism2 for activating the atpase catalytic center
49d1s16a2
not modelled 97.5 19 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
50c1zxnB_
not modelled 97.5 19 PDB header:isomerase
Chain: B: PDB Molecule:dna topoisomerase ii, alpha isozyme;
PDBTitle: human dna topoisomerase iia atpase/adp
51c2o1wB_
not modelled 97.5 19 PDB header:chaperone
Chain: B: PDB Molecule:endoplasmin;
PDBTitle: structure of n-terminal plus middle domains (n+m) of grp94
52c1kijB_
not modelled 97.4 14 PDB header:isomerase
Chain: B: PDB Molecule:dna gyrase subunit b;
PDBTitle: crystal structure of the 43k atpase domain of thermus thermophilus2 gyrase b in complex with novobiocin
53c2cg9A_
not modelled 97.4 13 PDB header:chaperone
Chain: A: PDB Molecule:atp-dependent molecular chaperone hsp82;
PDBTitle: crystal structure of an hsp90-sba1 closed chaperone complex
54c1qzrA_
not modelled 97.4 15 PDB header:isomerase
Chain: A: PDB Molecule:dna topoisomerase ii;
PDBTitle: crystal structure of the atpase region of saccharomyces cerevisiae2 topoisomerase ii bound to icrf-187 (dexrazoxane)
55c1s16B_
not modelled 97.4 22 PDB header:isomerase
Chain: B: PDB Molecule:topoisomerase iv subunit b;
PDBTitle: crystal structure of e. coli topoisomerase iv pare 43kda subunit2 complexed with adpnp
56c3pehB_
not modelled 97.3 14 PDB header:chaperone
Chain: B: PDB Molecule:endoplasmin homolog;
PDBTitle: crystal structure of the n-terminal domain of an hsp90 from plasmodium2 falciparum, pfl1070c in the presence of a thienopyrimidine derivative
57c2iorA_
not modelled 97.3 18 PDB header:chaperone
Chain: A: PDB Molecule:chaperone protein htpg;
PDBTitle: crystal structure of the n-terminal domain of htpg, the2 escherichia coli hsp90, bound to adp
58d1uyla_
not modelled 97.2 16 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Heat shock protein 90, HSP90, N-terminal domain
59c2fwyA_
not modelled 97.2 16 PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein hsp 90-alpha;
PDBTitle: structure of human hsp90-alpha bound to the potent water2 soluble inhibitor pu-h64
60d1s14a_
not modelled 97.2 18 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:DNA gyrase/MutL, N-terminal domain
61c3iedA_
not modelled 97.2 22 PDB header:chaperone
Chain: A: PDB Molecule:heat shock protein;
PDBTitle: crystal structure of n-terminal domain of plasmodium falciparum hsp902 (pf14_0417) in complex with amppn
62c3g7bB_
not modelled 97.2 21 PDB header:isomerase
Chain: B: PDB Molecule:dna gyrase subunit b;
PDBTitle: staphylococcus aureus gyrase b co-complex with inhibitor
63c2iopD_
not modelled 97.2 15 PDB header:chaperone
Chain: D: PDB Molecule:chaperone protein htpg;
PDBTitle: crystal structure of full-length htpg, the escherichia coli2 hsp90, bound to adp
64d1uyma_
not modelled 97.1 14 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Heat shock protein 90, HSP90, N-terminal domain
65d1joya_
not modelled 97.0 25 Fold:ROP-like
Superfamily:Homodimeric domain of signal transducing histidine kinase
Family:Homodimeric domain of signal transducing histidine kinase
66d2gqpa1
not modelled 97.0 13 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Heat shock protein 90, HSP90, N-terminal domain
67c3lnuA_
not modelled 96.9 19 PDB header:isomerase
Chain: A: PDB Molecule:topoisomerase iv subunit b;
PDBTitle: crystal structure of pare subunit
68c2akpA_
not modelled 96.9 18 PDB header:chaperone
Chain: A: PDB Molecule:atp-dependent molecular chaperone hsp82;
PDBTitle: hsp90 delta24-n210 mutant
69d1qy5a_
not modelled 96.8 16 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
Family:Heat shock protein 90, HSP90, N-terminal domain
70c3zrwB_
not modelled 96.8 22 PDB header:signaling protein
Chain: B: PDB Molecule:af1503 protein, osmolarity sensor protein envz;
PDBTitle: the structure of the dimeric hamp-dhp fusion a291v mutant
71c2w1tB_
not modelled 96.7 16 PDB header:transcription
Chain: B: PDB Molecule:stage v sporulation protein t;
PDBTitle: crystal structure of b. subtilis spovt
72c2w1rA_
not modelled 96.2 15 PDB header:transcription
Chain: A: PDB Molecule:stage v sporulation protein t;
PDBTitle: crystal structure of the c-terminal domain of b. subtilis2 spovt
73d2veaa1
not modelled 95.7 12 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
74c2lb5A_
not modelled 94.6 16 PDB header:transferase
Chain: A: PDB Molecule:sensor histidine kinase;
PDBTitle: refined structural basis for the photoconversion of a phytochrome to2 the activated far-red light-absorbing form
75c2oolA_
not modelled 94.4 11 PDB header:signaling protein
Chain: A: PDB Molecule:sensor protein;
PDBTitle: crystal structure of the chromophore-binding domain of an unusual2 bacteriophytochrome rpbphp3 from r. palustris
76c3cwvB_
not modelled 94.4 20 PDB header:isomerase
Chain: B: PDB Molecule:dna gyrase, b subunit, truncated;
PDBTitle: crystal structure of b-subunit of the dna gyrase from myxococcus2 xanthus
77c3mmhA_
not modelled 94.4 17 PDB header:oxidoreductase
Chain: A: PDB Molecule:methionine-r-sulfoxide reductase;
PDBTitle: x-ray structure of free methionine-r-sulfoxide reductase from2 neisseria meningitidis in complex with its substrate
78c3e0yA_
not modelled 94.3 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:conserved domain protein;
PDBTitle: the crystal structure of a conserved domain from a protein of2 geobacter sulfurreducens pca
79d2o9ca1
not modelled 94.3 17 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
80c3k2nB_
not modelled 94.2 16 PDB header:transcription regulator
Chain: B: PDB Molecule:sigma-54-dependent transcriptional regulator;
PDBTitle: the crystal structure of sigma-54-dependent transcriptional2 regulator domain from chlorobium tepidum tls
81c1vhmB_
94.2 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:protein yebr;
PDBTitle: crystal structure of an hypothetical protein
82c1mc0A_
not modelled 94.0 13 PDB header:hydrolase
Chain: A: PDB Molecule:3',5'-cyclic nucleotide phosphodiesterase 2a;
PDBTitle: regulatory segment of mouse 3',5'-cyclic nucleotide phosphodiesterase2 2a, containing the gaf a and gaf b domains
83c3p01C_
not modelled 93.8 14 PDB header:signaling protein
Chain: C: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of two-component response regulator from nostoc sp.2 pcc 7120
84c3trcA_
not modelled 93.3 22 PDB header:transferase
Chain: A: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: structure of the gaf domain from a phosphoenolpyruvate-protein2 phosphotransferase (ptsp) from coxiella burnetii
85d1vhma_
not modelled 93.3 15 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
86c3hcyB_
not modelled 93.1 22 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:putative two-component sensor histidine kinase protein;
PDBTitle: the crystal structure of the domain of putative two-component sensor2 histidine kinase protein from sinorhizobium meliloti 1021
87d2k2na1
not modelled 93.1 15 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
88c2vjwA_
not modelled 92.8 18 PDB header:hydrolase
Chain: A: PDB Molecule:gaf family protein;
PDBTitle: crystal structure of the second gaf domain of devs from2 mycobacterium smegmatis
89d2oola1
not modelled 92.1 11 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
90c3ci6B_
not modelled 91.9 16 PDB header:transferase
Chain: B: PDB Molecule:phosphoenolpyruvate-protein phosphotransferase;
PDBTitle: crystal structure of the gaf domain from acinetobacter2 phosphoenolpyruvate-protein phosphotransferase
91c3lmmA_
not modelled 91.7 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein;
PDBTitle: crystal structure of the dip2311 protein from2 corynebacterium diphtheriae, northeast structural genomics3 consortium target cdr35
92c2o9bA_
not modelled 91.4 17 PDB header:transferase
Chain: A: PDB Molecule:bacteriophytochrome;
PDBTitle: crystal structure of bacteriophytochrome chromophore binding domain
93c2zmfA_
not modelled 90.3 10 PDB header:hydrolase
Chain: A: PDB Molecule:camp and camp-inhibited cgmp 3',5'-cyclic phosphodiesterase
PDBTitle: crystal structure of the c-terminal gaf domain of human2 phosphodiesterase 10a
94c3ksiA_
not modelled 89.7 14 PDB header:oxidoreductase
Chain: A: PDB Molecule:putative uncharacterized protein;
PDBTitle: structure of frmsr of staphylococcus aureus (complex with 2-propanol)
95c3oovA_
not modelled 88.1 13 PDB header:signaling protein
Chain: A: PDB Molecule:methyl-accepting chemotaxis protein, putative;
PDBTitle: crystal structure of a methyl-accepting chemotaxis protein, residues2 122 to 287
96c1ykdB_
not modelled 87.7 13 PDB header:lyase
Chain: B: PDB Molecule:adenylate cyclase;
PDBTitle: crystal structure of the tandem gaf domains from a cyanobacterial2 adenylyl cyclase: novel modes of ligand-binding and dimerization
97c3o5yA_
not modelled 87.5 14 PDB header:transcription regulator
Chain: A: PDB Molecule:sensor protein;
PDBTitle: the crystal structure of the gaf domain of a two-component sensor2 histidine kinase from bacillus halodurans to 2.45a
98c3eeaB_
not modelled 84.6 6 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:gaf domain/hd domain protein;
PDBTitle: the crystal structure of the gaf domain/hd domain protein2 from geobacter sulfurreducens
99d1mc0a1
not modelled 82.9 14 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
100c3dbaB_
not modelled 82.6 17 PDB header:hydrolase
Chain: B: PDB Molecule:cone cgmp-specific 3',5'-cyclic phosphodiesterase subunit
PDBTitle: crystal structure of the cgmp-bound gaf a domain from the2 photoreceptor phosphodiesterase 6c
101d1f5ma_
not modelled 81.7 14 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
102c2w3gA_
not modelled 81.5 14 PDB header:transferase
Chain: A: PDB Molecule:two component sensor histidine kinase devs (gaf
PDBTitle: air-oxidized structure of the first gaf domain of2 mycobacterium tuberculosis doss
103c3mf0A_
80.0 9 PDB header:hydrolase
Chain: A: PDB Molecule:cgmp-specific 3',5'-cyclic phosphodiesterase;
PDBTitle: crystal structure of pde5a gaf domain (89-518)
104c2veaA_
not modelled 79.4 10 PDB header:transferase
Chain: A: PDB Molecule:phytochrome-like protein cph1;
PDBTitle: the complete sensory module of the cyanobacterial2 phytochrome cph1 in the pr-state.
105c3p01A_
not modelled 74.9 15 PDB header:signaling protein
Chain: A: PDB Molecule:two-component response regulator;
PDBTitle: crystal structure of two-component response regulator from nostoc sp.2 pcc 7120
106d3c2wa1
not modelled 73.9 15 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
107d1mc0a2
not modelled 72.9 11 Fold:Profilin-like
Superfamily:GAF domain-like
Family:GAF domain
108c3ibjB_
not modelled 69.0 15 PDB header:hydrolase
Chain: B: PDB Molecule:cgmp-dependent 3',5'-cyclic phosphodiesterase;
PDBTitle: x-ray structure of pde2a
109c3c2wB_
not modelled 64.3 14 PDB header:signaling protein
Chain: B: PDB Molecule:bacteriophytochrome;
PDBTitle: crystal structure of the photosensory core domain of p.2 aeruginosa bacteriophytochrome pabphp in the pfr state
110d1q8ka2
not modelled 58.6 11 Fold:Ferredoxin-like
Superfamily:eIF-2-alpha, C-terminal domain
Family:eIF-2-alpha, C-terminal domain
111c1yz7A_
not modelled 52.5 17 PDB header:translation
Chain: A: PDB Molecule:probable translation initiation factor 2 alpha
PDBTitle: crystal structure of a c-terminal segment of the alpha2 subunit of aif2 from pyrococcus abyssi
112c3e98B_
not modelled 50.2 22 PDB header:unknown function
Chain: B: PDB Molecule:gaf domain of unknown function;
PDBTitle: crystal structure of a gaf domain containing protein that belongs to2 pfam duf484 family (pa5279) from pseudomonas aeruginosa at 2.43 a3 resolution
113c3p5nA_
not modelled 47.3 16 PDB header:transport protein
Chain: A: PDB Molecule:riboflavin uptake protein;
PDBTitle: structure and mechanism of the s component of a bacterial ecf2 transporter
114c2qybA_
not modelled 43.8 17 PDB header:membrane protein
Chain: A: PDB Molecule:membrane protein, putative;
PDBTitle: crystal structure of the gaf domain region of putative membrane2 protein from geobacter sulfurreducens pca
115c1yz6A_
not modelled 42.6 16 PDB header:translation
Chain: A: PDB Molecule:probable translation initiation factor 2 alpha
PDBTitle: crystal structure of intact alpha subunit of aif2 from2 pyrococcus abyssi
116d1j0ga_
not modelled 41.9 22 Fold:beta-Grasp (ubiquitin-like)
Superfamily:Ubiquitin-like
Family:BM-002-like
117c1ut8B_
not modelled 39.2 30 PDB header:hydrolase
Chain: B: PDB Molecule:exodeoxyribonuclease;
PDBTitle: divalent metal ions (zinc) bound to t5 5'-exonuclease
118d1b74a1
not modelled 38.2 27 Fold:ATC-like
Superfamily:Aspartate/glutamate racemase
Family:Aspartate/glutamate racemase
119d1kyfa2
not modelled 37.7 9 Fold:Subdomain of clathrin and coatomer appendage domain
Superfamily:Subdomain of clathrin and coatomer appendage domain
Family:Clathrin adaptor appendage, alpha and beta chain-specific domain
120c2xssB_
not modelled 32.2 6 PDB header:hydrolase
Chain: B: PDB Molecule:cgmp-specific 3', 5'-cyclic phosphodiesterase;
PDBTitle: crystal structure of gafb from the human phosphodiesterase 5

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
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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