Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP0AEE3
DateThu Jan 5 11:23:07 GMT 2012
Unique Job ID6e7b4ae4131d2416

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3stjC_
Top template information
PDB header:hydrolase
Chain: C: PDB Molecule:protease degq;
PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli
Confidence and coverage
Confidence:100.0% Coverage: 84%
298 residues ( 84% 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  MFVKLLRSVAIGLIVGAILLVAMPSLRSLNPLSTPQFDSTDETPASYNLAVRRAAPAVVN
Secondary structure 
SS confidence 
Disorder  ?
??????????????????????????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VYNRGLNTNSHNQLEIRTLGSGVIMDQRGYIITNKHVINDADQIIVALQDGRVFEALLVG
Secondary structure 
SS confidence 
Disorder 
????????????????
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  SDSLTDLAVLKINATGGLPTIPINARRVPHIGDVVLAIGNPYNLGQTITQGIISATGRIG
Secondary structure 
SS confidence 
Disorder 
???
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  LNPTGRQNFLQTDASINHGNSGGALVNSLGELMGINTLSFDKSNDGETPEGIGFAIPFQL
Secondary structure 
SS confidence 
Disorder  ??????
??????????
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  ATKIMDKLIRDGRVIRGYIGIGGREIAPLHAQGGGIDQLQGIVVNEVSPDGPAANAGIQV
Secondary structure 
SS confidence 
Disorder 
?
?
????
????
?
Disorder confidence 
 
   .........310.........320.........330.........340.........350.....
Sequence  NDLIISVDNKPAISALETMDQVAEIRPGSVIPVVVMRDDKQLTLQVTIQEYPATN
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 3stj chain C

3D model

Region: 43 - 350
Aligned: 298
Modelled: 305
Confidence: 100.0%
Identity: 43%
PDB header:hydrolase
Chain: C: PDB Molecule:protease degq;
PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli

Phyre2

PDB 1ky9 chain A

3D model

Region: 43 - 347
Aligned: 297
Modelled: 297
Confidence: 100.0%
Identity: 40%
PDB header:hydrolase
Chain: A: PDB Molecule:protease do;
PDBTitle: crystal structure of degp (htra)

Phyre2

PDB 3gds chain A

3D model

Region: 38 - 347
Aligned: 295
Modelled: 310
Confidence: 100.0%
Identity: 95%
PDB header:hydrolase/hydrolase activator
Chain: A: PDB Molecule:protease degs;
PDBTitle: crystal structure of degs h198p/d320a mutant modified by dfp in2 complex with dnrdgnvyyf peptide

Phyre2

PDB 4a8a chain I

3D model

Region: 43 - 354
Aligned: 303
Modelled: 309
Confidence: 100.0%
Identity: 42%
PDB header:hydrolase/hydrolase
Chain: I: PDB Molecule:periplasmic ph-dependent serine endoprotease degq;
PDBTitle: asymmetric cryo-em reconstruction of e. coli degq 12-mer in complex2 with lysozyme

Phyre2

PDB 3pv5 chain B

3D model

Region: 46 - 352
Aligned: 283
Modelled: 307
Confidence: 100.0%
Identity: 44%
PDB header:hydrolase
Chain: B: PDB Molecule:degq;
PDBTitle: structure of legionella fallonii degq (n189g/p190g variant)

Phyre2

PDB 3qo6 chain B

3D model

Region: 39 - 352
Aligned: 306
Modelled: 312
Confidence: 100.0%
Identity: 35%
PDB header:photosynthesis
Chain: B: PDB Molecule:protease do-like 1, chloroplastic;
PDBTitle: crystal structure analysis of the plant protease deg1

Phyre2

PDB 1lcy chain A

3D model

Region: 36 - 351
Aligned: 295
Modelled: 316
Confidence: 100.0%
Identity: 30%
PDB header:hydrolase
Chain: A: PDB Molecule:htra2 serine protease;
PDBTitle: crystal structure of the mitochondrial serine protease htra2

Phyre2

PDB 3pv4 chain A

3D model

Region: 45 - 350
Aligned: 278
Modelled: 306
Confidence: 100.0%
Identity: 44%
PDB header:hydrolase
Chain: A: PDB Molecule:degq;
PDBTitle: structure of legionella fallonii degq (delta-pdz2 variant)

Phyre2

PDB 2r3y chain C

3D model

Region: 42 - 352
Aligned: 275
Modelled: 293
Confidence: 100.0%
Identity: 100%
PDB header:hydrolase/hydrolase activator
Chain: C: PDB Molecule:protease degs;
PDBTitle: crystal structure of the degs protease in complex with the2 ywf activating peptide

Phyre2

PDB 2z9i chain B

3D model

Region: 43 - 340
Aligned: 265
Modelled: 284
Confidence: 100.0%
Identity: 36%
PDB header:hydrolase
Chain: B: PDB Molecule:probable serine protease pepd;
PDBTitle: crystal structure of rv0983 from mycobacterium tuberculosis-2 proteolytically active form

Phyre2

PDB 1ky9 chain A domain 2

3D model

Region: 43 - 253
Aligned: 203
Modelled: 211
Confidence: 100.0%
Identity: 43%
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Family: Prokaryotic proteases

Phyre2

PDB 2rce chain I

3D model

Region: 37 - 251
Aligned: 197
Modelled: 215
Confidence: 100.0%
Identity: 97%
PDB header:hydrolase
Chain: I: PDB Molecule:protease degs;
PDBTitle: dfp modified degs delta pdz

Phyre2

PDB 1l1j chain A

3D model

Region: 44 - 249
Aligned: 202
Modelled: 206
Confidence: 100.0%
Identity: 39%
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Family: Prokaryotic proteases

Phyre2

PDB 2qf3 chain A domain 1

3D model

Region: 43 - 252
Aligned: 189
Modelled: 210
Confidence: 100.0%
Identity: 97%
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Family: Prokaryotic proteases

Phyre2

PDB 3nzi chain A

3D model

Region: 36 - 251
Aligned: 207
Modelled: 216
Confidence: 100.0%
Identity: 35%
PDB header:hydrolase/hydrolase substrate
Chain: A: PDB Molecule:serine protease htra1;
PDBTitle: substrate induced remodeling of the active site regulates htra12 activity

Phyre2

PDB 3sti chain C

3D model

Region: 43 - 251
Aligned: 182
Modelled: 194
Confidence: 100.0%
Identity: 52%
PDB header:hydrolase
Chain: C: PDB Molecule:protease degq;
PDBTitle: crystal structure of the protease domain of degq from escherichia coli

Phyre2

PDB 2z9i chain A domain 2

3D model

Region: 45 - 253
Aligned: 193
Modelled: 209
Confidence: 100.0%
Identity: 39%
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Family: Prokaryotic proteases

Phyre2

PDB 3nwu chain B

3D model

Region: 36 - 245
Aligned: 183
Modelled: 210
Confidence: 100.0%
Identity: 39%
PDB header:hydrolase
Chain: B: PDB Molecule:serine protease htra1;
PDBTitle: substrate induced remodeling of the active site regulates htra12 activity

Phyre2

PDB 1lcy chain A domain 2

3D model

Region: 36 - 245
Aligned: 195
Modelled: 210
Confidence: 100.0%
Identity: 34%
Fold: Trypsin-like serine proteases
Superfamily: Trypsin-like serine proteases
Family: Prokaryotic proteases

Phyre2

PDB 3k6z chain A

3D model

Region: 39 - 248
Aligned: 187
Modelled: 210
Confidence: 100.0%
Identity: 24%
PDB header:hydrolase
Chain: A: PDB Molecule:possible membrane-associated serine protease;
PDBTitle: crystal structure of rv3671c protease, inactive form

Phyre2
1
c3stjC_
2
c1ky9A_
3
c3gdsA_
4
c4a8aI_
5
c3pv5B_
6
c3qo6B_
7
c1lcyA_
8
c3pv4A_
9
c2r3yC_
10
c2z9iB_
11
d1ky9a2
12
c2rceI_
13
d1l1ja_
14
d2qf3a1
15
c3nziA_
16
c3stiC_
17
d2z9ia2
18
c3nwuB_
19
d1lcya2
20
c3k6zA_
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
418
419
420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
474
475
476
477
478
479
480
481
482
483
484
485
486



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3stjC_
100.0 43 PDB header:hydrolase
Chain: C: PDB Molecule:protease degq;
PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli
2c1ky9A_
100.0 40 PDB header:hydrolase
Chain: A: PDB Molecule:protease do;
PDBTitle: crystal structure of degp (htra)
3c3gdsA_
100.0 95 PDB header:hydrolase/hydrolase activator
Chain: A: PDB Molecule:protease degs;
PDBTitle: crystal structure of degs h198p/d320a mutant modified by dfp in2 complex with dnrdgnvyyf peptide
4c4a8aI_
100.0 42 PDB header:hydrolase/hydrolase
Chain: I: PDB Molecule:periplasmic ph-dependent serine endoprotease degq;
PDBTitle: asymmetric cryo-em reconstruction of e. coli degq 12-mer in complex2 with lysozyme
5c3pv5B_
100.0 44 PDB header:hydrolase
Chain: B: PDB Molecule:degq;
PDBTitle: structure of legionella fallonii degq (n189g/p190g variant)
6c3qo6B_
100.0 35 PDB header:photosynthesis
Chain: B: PDB Molecule:protease do-like 1, chloroplastic;
PDBTitle: crystal structure analysis of the plant protease deg1
7c1lcyA_
100.0 30 PDB header:hydrolase
Chain: A: PDB Molecule:htra2 serine protease;
PDBTitle: crystal structure of the mitochondrial serine protease htra2
8c3pv4A_
100.0 44 PDB header:hydrolase
Chain: A: PDB Molecule:degq;
PDBTitle: structure of legionella fallonii degq (delta-pdz2 variant)
9c2r3yC_
100.0 100 PDB header:hydrolase/hydrolase activator
Chain: C: PDB Molecule:protease degs;
PDBTitle: crystal structure of the degs protease in complex with the2 ywf activating peptide
10c2z9iB_
100.0 36 PDB header:hydrolase
Chain: B: PDB Molecule:probable serine protease pepd;
PDBTitle: crystal structure of rv0983 from mycobacterium tuberculosis-2 proteolytically active form
11d1ky9a2
100.0 43 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
12c2rceI_
100.0 97 PDB header:hydrolase
Chain: I: PDB Molecule:protease degs;
PDBTitle: dfp modified degs delta pdz
13d1l1ja_
100.0 39 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
14d2qf3a1
100.0 97 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
15c3nziA_
100.0 35 PDB header:hydrolase/hydrolase substrate
Chain: A: PDB Molecule:serine protease htra1;
PDBTitle: substrate induced remodeling of the active site regulates htra12 activity
16c3stiC_
100.0 52 PDB header:hydrolase
Chain: C: PDB Molecule:protease degq;
PDBTitle: crystal structure of the protease domain of degq from escherichia coli
17d2z9ia2
100.0 39 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
18c3nwuB_
100.0 39 PDB header:hydrolase
Chain: B: PDB Molecule:serine protease htra1;
PDBTitle: substrate induced remodeling of the active site regulates htra12 activity
19d1lcya2
100.0 34 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
20c3k6zA_
100.0 24 PDB header:hydrolase
Chain: A: PDB Molecule:possible membrane-associated serine protease;
PDBTitle: crystal structure of rv3671c protease, inactive form
21c1zyoA_
not modelled 100.0 16 PDB header:hydrolase
Chain: A: PDB Molecule:serine protease;
PDBTitle: crystal structure of the serine protease domain of sesbania mosaic2 virus polyprotein
22c3mmgB_
not modelled 99.9 19 PDB header:viral protein, hydrolase
Chain: B: PDB Molecule:nuclear inclusion protein a;
PDBTitle: crystal structure of tobacco vein mottling virus protease
23c2w5eB_
not modelled 99.9 18 PDB header:hydrolase
Chain: B: PDB Molecule:putative serine protease;
PDBTitle: structural and biochemical analysis of human pathogenic2 astrovirus serine protease at 2.0 angstrom resolution
24d1q31a_
not modelled 99.9 18 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral proteases
25d1lvmb_
not modelled 99.9 17 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral proteases
26d1qtfa_
not modelled 99.9 28 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
27d1agja_
not modelled 99.9 23 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
28c2vidA_
not modelled 99.9 19 PDB header:hydrolase
Chain: A: PDB Molecule:serine protease splb;
PDBTitle: serine protease splb from staphylococcus aureus at 1.8a2 resolution
29c2w7uC_
not modelled 99.8 26 PDB header:hydrolase
Chain: C: PDB Molecule:serine protease spla;
PDBTitle: spla serine protease of staphylococcus aureus (2.4a)
30d1cqqa_
not modelled 99.8 15 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral cysteine protease of trypsin fold
31c2p3wB_
not modelled 99.8 28 PDB header:protein binding
Chain: B: PDB Molecule:probable serine protease htra3;
PDBTitle: crystal structure of the htra3 pdz domain bound to a phage-derived2 ligand (fgrwv)
32d1lcya1
not modelled 99.8 27 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:HtrA-like serine proteases
33c2as9B_
not modelled 99.8 24 PDB header:hydrolase
Chain: B: PDB Molecule:serine protease;
PDBTitle: functional and structural characterization of spl proteases2 from staphylococcus aureus
34d1ky9a1
not modelled 99.8 34 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:HtrA-like serine proteases
35c2b0fA_
not modelled 99.8 19 PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:picornain 3c (protease 3c) (p3c);
PDBTitle: nmr structure of the human rhinovirus 3c protease (serotype 14) with2 covalently bound ace-lealfq-ethylpropionate inhibitor
36c2joaA_
not modelled 99.8 30 PDB header:protein binding
Chain: A: PDB Molecule:serine protease htra1;
PDBTitle: htra1 bound to an optimized peptide: nmr assignment of pdz2 domain and ligand resonances
37d2qaaa1
not modelled 99.8 17 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
38d1l1na_
not modelled 99.8 15 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Viral cysteine protease of trypsin fold
39d2o8la1
not modelled 99.7 18 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
40c2o8lA_
not modelled 99.7 18 PDB header:hydrolase
Chain: A: PDB Molecule:v8 protease;
PDBTitle: structure of v8 protease from staphylococcus aureus
41c1qy6A_
not modelled 99.7 19 PDB header:protease
Chain: A: PDB Molecule:serine protease;
PDBTitle: structue of v8 protease from staphylococcus aureus
42d2z9ia1
not modelled 99.7 27 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:HtrA-like serine proteases
43c1wczA_
not modelled 99.7 20 PDB header:hydrolase
Chain: A: PDB Molecule:glutamyl endopeptidase;
PDBTitle: crystal structure of an alkaline form of v8 protease from2 staphylococcus aureus
44c2ouaA_
not modelled 99.7 16 PDB header:hydrolase
Chain: A: PDB Molecule:serine protease;
PDBTitle: crystal structure of nocardiopsis protease (napase)
45c2kl1A_
not modelled 99.7 25 PDB header:protein binding
Chain: A: PDB Molecule:ylbl protein;
PDBTitle: solution structure of gtr34c from geobacillus thermodenitrificans.2 northeast structural genomics consortium target gtr34c
46d2h5ca1
not modelled 99.7 18 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
47d2sfaa_
not modelled 99.6 17 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
48d2sgaa_
not modelled 99.6 17 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
49c3i18A_
not modelled 99.6 23 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lmo2051 protein;
PDBTitle: crystal structure of the pdz domain of the sdrc-like protein2 (lmo2051) from listeria monocytogenes, northeast structural3 genomics consortium target lmr166b
50c2kjpA_
not modelled 99.6 29 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:uncharacterized protein ylbl;
PDBTitle: solution structure of protein ylbl (bsu15050) from bacillus2 subtilis, northeast structural genomics consortium target3 sr713a
51d2i4sa1
not modelled 99.6 14 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:EpsC C-terminal domain-like
52d1p3ca_
not modelled 99.6 15 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
53c2pfeA_
not modelled 99.6 15 PDB header:hydrolase
Chain: A: PDB Molecule:alkaline serine protease;
PDBTitle: crystal structure of thermobifida fusca protease a (tfpa)
54d1hpga_
not modelled 99.6 19 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
55d1sota1
not modelled 99.6 97 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:HtrA-like serine proteases
56c2ea3A_
not modelled 99.6 17 PDB header:hydrolase
Chain: A: PDB Molecule:chymotrypsin;
PDBTitle: crystal structure of cellulomonas bogoriensis chymotrypsin
57d1arba_
not modelled 99.5 14 Fold:Trypsin-like serine proteases
Superfamily:Trypsin-like serine proteases
Family:Prokaryotic proteases
58d2i6va1
not modelled 99.5 13 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:EpsC C-terminal domain-like
59d2hgaa1
not modelled 99.5 21 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:MTH1368 C-terminal domain-like
60d1ky9b2
not modelled 99.4 28 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:HtrA-like serine proteases
61d1fc6a3
not modelled 99.4 24 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:Tail specific protease PDZ domain
62c2zplA_
not modelled 99.4 17 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of sigma e protease;
PDBTitle: crystal structure analysis of pdz domain a
63c3rleA_
not modelled 99.3 13 PDB header:membrane protein
Chain: A: PDB Molecule:golgi reassembly-stacking protein 2;
PDBTitle: crystal structure of grasp55 grasp domain (residues 7-208)
64c2zpmA_
not modelled 99.3 25 PDB header:hydrolase
Chain: A: PDB Molecule:regulator of sigma e protease;
PDBTitle: crystal structure analysis of pdz domain b
65c3cp7B_
not modelled 99.3 17 PDB header:hydrolase
Chain: B: PDB Molecule:alkaline serine protease al20;
PDBTitle: crystal structure of a thermostable serine protease al202 from extremophilic microoganism
66c2eaqA_
not modelled 99.1 26 PDB header:metal binding protein
Chain: A: PDB Molecule:lim domain only protein 7;
PDBTitle: crystal structure of pdz domain of kiaa0858 (lim), ms07932 from homo sapiens
67c3diwB_
not modelled 99.1 29 PDB header:signaling protein/cell adhesion
Chain: B: PDB Molecule:tax1-binding protein 3;
PDBTitle: c-terminal beta-catenin bound tip-1 structure
68d1uf1a_
not modelled 99.1 24 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
69c2eehA_
not modelled 99.1 28 PDB header:metal binding protein
Chain: A: PDB Molecule:pdz domain-containing protein 7;
PDBTitle: solution structure of first pdz domain of pdz domain2 containing protein 7
70d1x5qa1
not modelled 99.1 28 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
71c3shuB_
not modelled 99.0 25 PDB header:cell adhesion
Chain: B: PDB Molecule:tight junction protein zo-1;
PDBTitle: crystal structure of zo-1 pdz3
72d1rgwa_
not modelled 99.0 14 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
73c2q3gA_
not modelled 99.0 26 PDB header:structural genomics
Chain: A: PDB Molecule:pdz and lim domain protein 7;
PDBTitle: structure of the pdz domain of human pdlim7 bound to a c-2 terminal extension from human beta-tropomyosin
74c3l4fD_
not modelled 99.0 17 PDB header:signaling protein/protein binding
Chain: D: PDB Molecule:sh3 and multiple ankyrin repeat domains protein
PDBTitle: crystal structure of betapix coiled-coil domain and shank2 pdz complex
75c2v90E_
not modelled 99.0 24 PDB header:protein-binding
Chain: E: PDB Molecule:pdz domain-containing protein 3;
PDBTitle: crystal structure of the 3rd pdz domain of intestine- and2 kidney-enriched pdz domain ikepp (pdzd3)
76d2f5ya1
not modelled 99.0 23 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
77d1wfga_
not modelled 99.0 17 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
78c2v1wB_
not modelled 99.0 20 PDB header:structural protein
Chain: B: PDB Molecule:pdz and lim domain protein 4;
PDBTitle: crystal structure of human lim protein ril (pdlim4) pdz2 domain bound to the c-terminal peptide of human alpha-3 actinin-1
79c2komA_
not modelled 99.0 20 PDB header:signaling protein
Chain: A: PDB Molecule:partitioning defective 3 homolog;
PDBTitle: solution structure of humar par-3b pdz2 (residues 451-549)
80d1m5za_
not modelled 99.0 18 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
81c2krgA_
not modelled 99.0 21 PDB header:signaling protein
Chain: A: PDB Molecule:na(+)/h(+) exchange regulatory cofactor nhe-rf1;
PDBTitle: solution structure of human sodium/ hydrogen exchange2 regulatory factor 1(150-358)
82c2yuyA_
not modelled 99.0 22 PDB header:signaling protein
Chain: A: PDB Molecule:rho gtpase activating protein 21;
PDBTitle: solution structure of pdz domain of rho gtpase activating2 protein 21
83d1ueqa_
not modelled 99.0 23 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
84d1q3oa_
not modelled 99.0 18 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
85d1p1da2
not modelled 99.0 13 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
86d1wifa_
not modelled 99.0 23 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
87c2iwnA_
not modelled 99.0 26 PDB header:signaling protein
Chain: A: PDB Molecule:multiple pdz domain protein;
PDBTitle: 3rd pdz domain of multiple pdz domain protein mpdz (casp2 target)
88c3f1sB_
not modelled 99.0 15 PDB header:hydrolase inhibitor/hydrolase
Chain: B: PDB Molecule:vitamin k-dependent protein z;
PDBTitle: crystal structure of protein z complexed with protein z-dependent2 inhibitor
89c2f83A_
not modelled 99.0 23 PDB header:hydrolase
Chain: A: PDB Molecule:coagulation factor xi;
PDBTitle: crystal structure at 2.9 angstroms resolution of human plasma2 coagulation factor xi zymogen
90c2kjdA_
not modelled 99.0 21 PDB header:signaling protein
Chain: A: PDB Molecule:sodium/hydrogen exchange regulatory cofactor nhe-
PDBTitle: solution structure of extended pdz2 domain from nherf1 (150-2 270)
91d1wf7a_
not modelled 99.0 19 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
92c3shwA_
not modelled 98.9 26 PDB header:cell adhesion
Chain: A: PDB Molecule:tight junction protein zo-1;
PDBTitle: crystal structure of zo-1 pdz3-sh3-guk supramodule complex with2 connexin-45 peptide
93d1ozia_
not modelled 98.9 20 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
94d1w9ea1
not modelled 98.9 17 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
95d2fe5a1
not modelled 98.9 16 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
96c2he4A_
not modelled 98.9 18 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:na(+)/h(+) exchange regulatory cofactor nhe-rf2;
PDBTitle: the crystal structure of the second pdz domain of human2 nherf-2 (slc9a3r2) interacting with a mode 1 pdz binding3 motif
97c2egkC_
not modelled 98.9 23 PDB header:protein binding
Chain: C: PDB Molecule:general receptor for phosphoinositides 1-
PDBTitle: crystal structure of tamalin pdz-intrinsic ligand fusion2 protein
98c3cyyA_
not modelled 98.9 27 PDB header:peptide binding protein
Chain: A: PDB Molecule:tight junction protein zo-1;
PDBTitle: the crystal structure of zo-1 pdz2 in complex with the cx43 peptide
99c3osyA_
not modelled 98.9 15 PDB header:hydrolase
Chain: A: PDB Molecule:3c protease;
PDBTitle: human enterovirus 71 3c protease
100c2xrcD_
not modelled 98.9 16 PDB header:immune system
Chain: D: PDB Molecule:human complement factor i;
PDBTitle: human complement factor i
101c3k1rA_
not modelled 98.9 21 PDB header:structural protein
Chain: A: PDB Molecule:harmonin;
PDBTitle: structure of harmonin npdz1 in complex with the sam-pbm of2 sans
102c2vsvB_
not modelled 98.9 21 PDB header:protein-binding
Chain: B: PDB Molecule:rhophilin-2;
PDBTitle: crystal structure of the pdz domain of human rhophilin-2
103d1rzxa_
not modelled 98.9 20 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
104d1g9oa_
not modelled 98.9 16 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
105c2vwrA_
not modelled 98.9 16 PDB header:protein-binding
Chain: A: PDB Molecule:ligand of numb protein x 2;
PDBTitle: crystal structure of the second pdz domain of numb-binding2 protein 2
106d1t2ma1
not modelled 98.9 24 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
107c2o2tB_
not modelled 98.9 19 PDB header:structural protein
Chain: B: PDB Molecule:multiple pdz domain protein;
PDBTitle: the crystal structure of the 1st pdz domain of mpdz
108d1ry4a_
not modelled 98.9 20 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
109c2i04B_
not modelled 98.9 24 PDB header:peptide binding protein
Chain: B: PDB Molecule:membrane-associated guanylate kinase, ww and pdz
PDBTitle: x-ray crystal structure of magi-1 pdz1 bound to the c-2 terminal peptide of hpv18 e6
110c1p1dA_
not modelled 98.9 11 PDB header:protein binding
Chain: A: PDB Molecule:glutamate receptor interacting protein;
PDBTitle: structural insights into the inter-domain chaperoning of2 tandem pdz domains in glutamate receptor interacting3 proteins
111d2byga1
not modelled 98.9 21 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
112c1rs0A_
not modelled 98.9 16 PDB header:hydrolase
Chain: A: PDB Molecule:complement factor b;
PDBTitle: crystal structure analysis of the bb segment of factor b2 complexed with di-isopropyl-phosphate (dip)
113c2ok5A_
not modelled 98.9 17 PDB header:hydrolase
Chain: A: PDB Molecule:complement factor b;
PDBTitle: human complement factor b
114c2omjA_
not modelled 98.9 29 PDB header:cell adhesion
Chain: A: PDB Molecule:rho guanine nucleotide exchange factor 12;
PDBTitle: solution structure of larg pdz domain
115c2qt5A_
not modelled 98.9 23 PDB header:peptide binding protein
Chain: A: PDB Molecule:glutamate receptor-interacting protein 1;
PDBTitle: crystal structure of grip1 pdz12 in complex with the fras12 peptide
116c3khfA_
not modelled 98.9 21 PDB header:transferase
Chain: A: PDB Molecule:microtubule-associated serine/threonine-protein
PDBTitle: the crystal structure of the pdz domain of human microtubule2 associated serine/threonine kinase 3 (mast3)
117c2jxoA_
not modelled 98.9 21 PDB header:protein binding
Chain: A: PDB Molecule:ezrin-radixin-moesin-binding phosphoprotein 50;
PDBTitle: structure of the second pdz domain of nherf-1
118d1ueza_
not modelled 98.9 26 Fold:PDZ domain-like
Superfamily:PDZ domain-like
Family:PDZ domain
119c2ogpA_
not modelled 98.9 23 PDB header:signaling protein
Chain: A: PDB Molecule:partitioning-defective 3 homolog;
PDBTitle: solution structure of the second pdz domain of par-3
120c3qglD_
not modelled 98.9 20 PDB header:protein binding
Chain: D: PDB Molecule:sorting nexin-27;
PDBTitle: crystal structure of pdz domain of sorting nexin 27 (snx27) in complex2 with the eseskv peptide corresponding to the c-terminal tail of girk3

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