Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP09029
DateThu Jan 5 11:01:47 GMT 2012
Unique Job ID0a1852b3bd0fe0fa

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c3etjB_
Top template information
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure e. coli purk in complex with mg, adp, and2 pi
Confidence and coverage
Confidence:100.0% Coverage: 99%
351 residues ( 99% 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  MKQVCVLGNGQLGRMLRQAGEPLGIAVWPVGLDAEPAAVPFQQSVITAEIERWPETALTR
Secondary structure 
SS confidence 
Disorder  ??
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  ELARHPAFVNRDVFPIIADRLTQKQLFDKLHLPTAPWQLLAERSEWPAVFDRLGELAIVK
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  RRTGGYDGRGQWRLRANETEQLPAECYGECIVEQGINFSGEVSLVGARGFDGSTVFYPLT
Secondary structure 
SS confidence 
Disorder 
?????????
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  HNLHQDGILRTSVAFPQANAQQQAQAEEMLSAIMQELGYVGVMAMECFVTPQGLLINELA
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........250.........260.........270.........280.........290.........300
Sequence  PRVHNSGHWTQNGASISQFELHLRAITDLPLPQPVVNNPSVMINLIGSDVNYDWLKLPLV
Secondary structure 
SS confidence 
Disorder 
??????
Disorder confidence 
 
   .........310.........320.........330.........340.........350.....
Sequence  HLHWYDKEVRPGRKVGHLNLTDSDTSRLTATLEALIPLLPPEYASGVIWAQSKFG
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 3etj chain B

3D model

Region: 1 - 355
Aligned: 351
Modelled: 355
Confidence: 100.0%
Identity: 94%
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure e. coli purk in complex with mg, adp, and2 pi

Phyre2

PDB 3orq chain A

3D model

Region: 2 - 337
Aligned: 334
Modelled: 336
Confidence: 100.0%
Identity: 31%
PDB header:ligase,biosynthetic protein
Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp

Phyre2

PDB 3q2o chain B

3D model

Region: 2 - 342
Aligned: 341
Modelled: 341
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase

Phyre2

PDB 3uvz chain B

3D model

Region: 2 - 342
Aligned: 339
Modelled: 341
Confidence: 100.0%
Identity: 31%
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria

Phyre2

PDB 3k5i chain B

3D model

Region: 2 - 341
Aligned: 334
Modelled: 340
Confidence: 100.0%
Identity: 30%
PDB header:lyase
Chain: B: PDB Molecule:phosphoribosyl-aminoimidazole carboxylase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthase from2 aspergillus clavatus in complex with adp and 5-3 aminoimadazole ribonucleotide

Phyre2

PDB 1kjj chain A

3D model

Region: 2 - 342
Aligned: 339
Modelled: 340
Confidence: 100.0%
Identity: 23%
PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s

Phyre2

PDB 2dwc chain B

3D model

Region: 1 - 346
Aligned: 340
Modelled: 346
Confidence: 100.0%
Identity: 24%
PDB header:transferase
Chain: B: PDB Molecule:433aa long hypothetical phosphoribosylglycinamide formyl
PDBTitle: crystal structure of probable phosphoribosylglycinamide formyl2 transferase from pyrococcus horikoshii ot3 complexed with adp

Phyre2

PDB 2z04 chain A

3D model

Region: 2 - 338
Aligned: 289
Modelled: 295
Confidence: 100.0%
Identity: 35%
PDB header:lyase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure of phosphoribosylaminoimidazole2 carboxylase atpase subunit from aquifex aeolicus

Phyre2

PDB 3g8c chain B

3D model

Region: 1 - 349
Aligned: 348
Modelled: 349
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: B: PDB Molecule:biotin carboxylase;
PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion

Phyre2

PDB 2dzd chain B

3D model

Region: 1 - 349
Aligned: 348
Modelled: 349
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase

Phyre2

PDB 3bg5 chain C

3D model

Region: 1 - 352
Aligned: 351
Modelled: 352
Confidence: 100.0%
Identity: 14%
PDB header:ligase
Chain: C: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of staphylococcus aureus pyruvate2 carboxylase

Phyre2

PDB 3ouz chain A

3D model

Region: 1 - 349
Aligned: 348
Modelled: 337
Confidence: 100.0%
Identity: 13%
PDB header:ligase
Chain: A: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of biotin carboxylase-adp complex from campylobacter2 jejuni

Phyre2

PDB 1ulz chain A

3D model

Region: 1 - 349
Aligned: 348
Modelled: 349
Confidence: 100.0%
Identity: 16%
PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain;
PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase

Phyre2

PDB 2vpq chain A

3D model

Region: 2 - 349
Aligned: 347
Modelled: 348
Confidence: 100.0%
Identity: 13%
PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase;
PDBTitle: crystal structure of biotin carboxylase from s. aureus2 complexed with amppnp

Phyre2

PDB 2gpw chain C

3D model

Region: 1 - 349
Aligned: 343
Modelled: 349
Confidence: 100.0%
Identity: 14%
PDB header:ligase
Chain: C: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of the biotin carboxylase subunit, f363a2 mutant, of acetyl-coa carboxylase from escherichia coli.

Phyre2

PDB 2yya chain B

3D model

Region: 2 - 346
Aligned: 342
Modelled: 345
Confidence: 100.0%
Identity: 14%
PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of gar synthetase from aquifex aeolicus

Phyre2

PDB 1vkz chain A

3D model

Region: 2 - 346
Aligned: 337
Modelled: 339
Confidence: 100.0%
Identity: 13%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine--glycine ligase (tm1250) from2 thermotoga maritima at 2.30 a resolution

Phyre2

PDB 3n6r chain K

3D model

Region: 1 - 349
Aligned: 342
Modelled: 349
Confidence: 100.0%
Identity: 12%
PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)

Phyre2

PDB 3u9s chain E

3D model

Region: 1 - 349
Aligned: 342
Modelled: 349
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: E: PDB Molecule:methylcrotonyl-coa carboxylase, alpha-subunit;
PDBTitle: crystal structure of p. aeruginosa 3-methylcrotonyl-coa carboxylase2 (mcc) 750 kd holoenzyme, coa complex

Phyre2

PDB 2xd4 chain A

3D model

Region: 2 - 347
Aligned: 343
Modelled: 346
Confidence: 100.0%
Identity: 15%
PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase

Phyre2
1
c3etjB_
2
c3orqA_
3
c3q2oB_
4
c3uvzB_
5
c3k5iB_
6
c1kjjA_
7
c2dwcB_
8
c2z04A_
9
c3g8cB_
10
c2dzdB_
11
c3bg5C_
12
c3ouzA_
13
c1ulzA_
14
c2vpqA_
15
c2gpwC_
16
c2yyaB_
17
c1vkzA_
18
c3n6rK_
19
c3u9sE_
20
c2xd4A_
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
487
488
489
490
491
492
493
494
495
496
497
498
499



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c3etjB_
100.0 94 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure e. coli purk in complex with mg, adp, and2 pi
2c3orqA_
100.0 31 PDB header:ligase,biosynthetic protein
Chain: A: PDB Molecule:n5-carboxyaminoimidazole ribonucleotide synthetase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthetase from2 staphylococcus aureus complexed with adp
3c3q2oB_
100.0 31 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of purk: n5-carboxyaminoimidazole ribonucleotide2 synthetase
4c3uvzB_
100.0 31 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosylaminoimidazole carboxylase, atpase subunit;
PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase, atpase2 subunit from burkholderia ambifaria
5c3k5iB_
100.0 30 PDB header:lyase
Chain: B: PDB Molecule:phosphoribosyl-aminoimidazole carboxylase;
PDBTitle: crystal structure of n5-carboxyaminoimidazole synthase from2 aspergillus clavatus in complex with adp and 5-3 aminoimadazole ribonucleotide
6c1kjjA_
100.0 23 PDB header:transferase
Chain: A: PDB Molecule:phosphoribosylglycinamide formyltransferase 2;
PDBTitle: crystal structure of glycniamide ribonucleotide2 transformylase in complex with mg-atp-gamma-s
7c2dwcB_
100.0 24 PDB header:transferase
Chain: B: PDB Molecule:433aa long hypothetical phosphoribosylglycinamide formyl
PDBTitle: crystal structure of probable phosphoribosylglycinamide formyl2 transferase from pyrococcus horikoshii ot3 complexed with adp
8c2z04A_
100.0 35 PDB header:lyase
Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase atpase
PDBTitle: crystal structure of phosphoribosylaminoimidazole2 carboxylase atpase subunit from aquifex aeolicus
9c3g8cB_
100.0 15 PDB header:ligase
Chain: B: PDB Molecule:biotin carboxylase;
PDBTitle: crystal stucture of biotin carboxylase in complex with2 biotin, bicarbonate, adp and mg ion
10c2dzdB_
100.0 15 PDB header:ligase
Chain: B: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of the biotin carboxylase domain of2 pyruvate carboxylase
11c3bg5C_
100.0 14 PDB header:ligase
Chain: C: PDB Molecule:pyruvate carboxylase;
PDBTitle: crystal structure of staphylococcus aureus pyruvate2 carboxylase
12c3ouzA_
100.0 13 PDB header:ligase
Chain: A: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of biotin carboxylase-adp complex from campylobacter2 jejuni
13c1ulzA_
100.0 16 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase n-terminal domain;
PDBTitle: crystal structure of the biotin carboxylase subunit of pyruvate2 carboxylase
14c2vpqA_
100.0 13 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase;
PDBTitle: crystal structure of biotin carboxylase from s. aureus2 complexed with amppnp
15c2gpwC_
100.0 14 PDB header:ligase
Chain: C: PDB Molecule:biotin carboxylase;
PDBTitle: crystal structure of the biotin carboxylase subunit, f363a2 mutant, of acetyl-coa carboxylase from escherichia coli.
16c2yyaB_
100.0 14 PDB header:ligase
Chain: B: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of gar synthetase from aquifex aeolicus
17c1vkzA_
100.0 13 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine--glycine ligase (tm1250) from2 thermotoga maritima at 2.30 a resolution
18c3n6rK_
100.0 12 PDB header:ligase
Chain: K: PDB Molecule:propionyl-coa carboxylase, alpha subunit;
PDBTitle: crystal structure of the holoenzyme of propionyl-coa carboxylase (pcc)
19c3u9sE_
100.0 15 PDB header:ligase
Chain: E: PDB Molecule:methylcrotonyl-coa carboxylase, alpha-subunit;
PDBTitle: crystal structure of p. aeruginosa 3-methylcrotonyl-coa carboxylase2 (mcc) 750 kd holoenzyme, coa complex
20c2xd4A_
100.0 15 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: nucleotide-bound structures of bacillus subtilis glycinamide2 ribonucleotide synthetase
21c3gidB_
not modelled 100.0 14 PDB header:ligase
Chain: B: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: the biotin carboxylase (bc) domain of human acetyl-coa2 carboxylase 2 (acc2) in complex with soraphen a
22c2hjwA_
not modelled 100.0 14 PDB header:ligase
Chain: A: PDB Molecule:acetyl-coa carboxylase 2;
PDBTitle: crystal structure of the bc domain of acc2
23c1w96B_
not modelled 100.0 13 PDB header:ligase
Chain: B: PDB Molecule:acetyl-coenzyme a carboxylase;
PDBTitle: crystal structure of biotin carboxylase domain of acetyl-2 coenzyme a carboxylase from saccharomyces cerevisiae in3 complex with soraphen a
24c3lp8A_
not modelled 100.0 12 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine-glycine ligase;
PDBTitle: crystal structure of phosphoribosylamine-glycine ligase from2 ehrlichia chaffeensis
25c1m6vE_
not modelled 100.0 17 PDB header:ligase
Chain: E: PDB Molecule:carbamoyl phosphate synthetase large chain;
PDBTitle: crystal structure of the g359f (small subunit) point mutant of2 carbamoyl phosphate synthetase
26c2qk4A_
not modelled 100.0 14 PDB header:ligase
Chain: A: PDB Molecule:trifunctional purine biosynthetic protein adenosine-3;
PDBTitle: human glycinamide ribonucleotide synthetase
27c2ys6A_
not modelled 100.0 14 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylglycinamide synthetase;
PDBTitle: crystal structure of gar synthetase from geobacillus kaustophilus
28c1gsoA_
not modelled 100.0 14 PDB header:ligase
Chain: A: PDB Molecule:protein (glycinamide ribonucleotide synthetase);
PDBTitle: glycinamide ribonucleotide synthetase (gar-syn) from e.2 coli.
29c2ip4A_
not modelled 100.0 18 PDB header:ligase
Chain: A: PDB Molecule:phosphoribosylamine--glycine ligase;
PDBTitle: crystal structure of glycinamide ribonucleotide synthetase from2 thermus thermophilus hb8
30d3etja3
not modelled 100.0 99 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
31c3lwbA_
not modelled 100.0 17 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of apo d-alanine:d-alanine ligase (ddl) from2 mycobacterium tuberculosis
32c3r23B_
not modelled 100.0 12 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of d-alanine--d-alanine ligase from bacillus2 anthracis
33c3i12A_
not modelled 100.0 19 PDB header:ligase
Chain: A: PDB Molecule:d-alanine-d-alanine ligase a;
PDBTitle: the crystal structure of the d-alanyl-alanine synthetase a from2 salmonella enterica subsp. enterica serovar typhimurium str. lt2
34d1a9xa5
not modelled 100.0 15 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
35c2dlnA_
not modelled 100.0 17 PDB header:ligase(peptidoglycan synthesis)
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: vancomycin resistance: structure of d-alanine:d-alanine2 ligase at 2.3 angstroms resolution
36c1e4eB_
not modelled 100.0 13 PDB header:ligase
Chain: B: PDB Molecule:vancomycin/teicoplanin a-type resistance protein vana;
PDBTitle: d-alanyl-d-lacate ligase
37c1ehiB_
not modelled 100.0 11 PDB header:ligase
Chain: B: PDB Molecule:d-alanine:d-lactate ligase;
PDBTitle: d-alanine:d-lactate ligase (lmddl2) of vancomycin-resistant2 leuconostoc mesenteroides
38d1kjqa3
not modelled 100.0 25 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
39d1a9xa6
not modelled 100.0 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
40c2pvpB_
not modelled 100.0 13 PDB header:ligase
Chain: B: PDB Molecule:d-alanine-d-alanine ligase;
PDBTitle: crystal structure of d-alanine-d-alanine ligase from helicobacter2 pylori
41c2i80B_
not modelled 100.0 15 PDB header:ligase
Chain: B: PDB Molecule:d-alanine-d-alanine ligase;
PDBTitle: allosteric inhibition of staphylococcus aureus d-alanine:d-alanine2 ligase revealed by crystallographic studies
42c3tqtB_
not modelled 100.0 15 PDB header:ligase
Chain: B: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: structure of the d-alanine-d-alanine ligase from coxiella burnetii
43c3se7A_
not modelled 100.0 10 PDB header:ligase
Chain: A: PDB Molecule:vana;
PDBTitle: ancient vana
44c3e5nA_
not modelled 100.0 18 PDB header:ligase
Chain: A: PDB Molecule:d-alanine-d-alanine ligase a;
PDBTitle: crystal strucutre of d-alanine-d-alanine ligase from2 xanthomonas oryzae pv. oryzae kacc10331
45c2zdqA_
not modelled 100.0 11 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of d-alanine:d-alanine ligase with atp2 and d-alanine:d-alanine from thermus thermophius hb8
46c2pn1A_
not modelled 100.0 12 PDB header:ligase
Chain: A: PDB Molecule:carbamoylphosphate synthase large subunit;
PDBTitle: crystal structure of carbamoylphosphate synthase large subunit (split2 gene in mj) (zp_00538348.1) from exiguobacterium sp. 255-15 at 2.00 a3 resolution
47c2r85B_
not modelled 100.0 14 PDB header:unknown function
Chain: B: PDB Molecule:purp protein pf1517;
PDBTitle: crystal structure of purp from pyrococcus furiosus complexed with amp
48d1w96a3
not modelled 100.0 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
49c2qf7A_
not modelled 100.0 13 PDB header:ligase
Chain: A: PDB Molecule:pyruvate carboxylase protein;
PDBTitle: crystal structure of a complete multifunctional pyruvate carboxylase2 from rhizobium etli
50c3k3pA_
not modelled 100.0 15 PDB header:ligase
Chain: A: PDB Molecule:d-alanine--d-alanine ligase;
PDBTitle: crystal structure of the apo form of d-alanine:d-alanine ligase (ddl)2 from streptococcus mutans
51d2j9ga3
not modelled 100.0 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
52c3df7A_
not modelled 100.0 11 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative atp-grasp superfamily protein;
PDBTitle: crystal structure of a putative atp-grasp superfamily2 protein from archaeoglobus fulgidus
53d1ulza3
not modelled 100.0 17 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
54c1uc8B_
not modelled 100.0 15 PDB header:biosynthetic protein
Chain: B: PDB Molecule:lysine biosynthesis enzyme;
PDBTitle: crystal structure of a lysine biosynthesis enzyme, lysx,2 from thermus thermophilus hb8
55d1vkza3
not modelled 100.0 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
56d2r85a2
not modelled 99.9 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
57d2r7ka2
not modelled 99.9 16 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
58d1ehia2
not modelled 99.9 13 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
59d1iowa2
not modelled 99.9 20 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
60d1e4ea2
not modelled 99.9 15 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
61d1uc8a2
not modelled 99.9 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Lysine biosynthesis enzyme LysX ATP-binding domain
62d1gsoa3
not modelled 99.9 13 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:BC ATP-binding domain-like
63c3ln6A_
not modelled 99.9 16 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 streptococcus agalactiae
64c1gshA_
not modelled 99.8 10 PDB header:glutathione biosynthesis ligase
Chain: A: PDB Molecule:glutathione biosynthetic ligase;
PDBTitle: structure of escherichia coli glutathione synthetase at ph 7.5
65c1z2pX_
not modelled 99.8 13 PDB header:transferase
Chain: X: PDB Molecule:inositol 1,3,4-trisphosphate 5/6-kinase;
PDBTitle: inositol 1,3,4-trisphosphate 5/6-kinase in complex with mg2+/amp-2 pcp/ins(1,3,4)p3
66c2p0aA_
not modelled 99.8 9 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin-3;
PDBTitle: the crystal structure of human synapsin iii (syn3) in complex with2 amppnp
67c1i7nA_
not modelled 99.8 10 PDB header:neuropeptide
Chain: A: PDB Molecule:synapsin ii;
PDBTitle: crystal structure analysis of the c domain of synapsin ii2 from rat brain
68c3ln7A_
not modelled 99.8 13 PDB header:ligase
Chain: A: PDB Molecule:glutathione biosynthesis bifunctional protein gshab;
PDBTitle: crystal structure of a bifunctional glutathione synthetase from2 pasteurella multocida
69c2qb5B_
not modelled 99.8 12 PDB header:transferase
Chain: B: PDB Molecule:inositol-tetrakisphosphate 1-kinase;
PDBTitle: crystal structure of human inositol 1,3,4-trisphosphate 5/6-kinase2 (itpk1) in complex with adp and mn2+
70c1pk8D_
not modelled 99.8 10 PDB header:membrane protein
Chain: D: PDB Molecule:rat synapsin i;
PDBTitle: crystal structure of rat synapsin i c domain complexed to2 ca.atp
71d1pk8a2
not modelled 99.8 12 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
72d3etja1
not modelled 99.7 100 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
73d1i7na2
not modelled 99.7 11 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Synapsin C-terminal domain
74c3t9aA_
not modelled 99.7 11 PDB header:transferase
Chain: A: PDB Molecule:inositol pyrophosphate kinase;
PDBTitle: crystal structure of the catalytic domain of human diphosphoinositol2 pentakisphosphate kinase 2 (ppip5k2) in complex with amppnp at ph 7.0
75d1kjqa2
not modelled 99.6 22 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
76d1gsaa2
not modelled 99.5 10 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:ATP-binding domain of peptide synthetases
77c2r7mA_
not modelled 99.4 14 PDB header:ligase
Chain: A: PDB Molecule:5-formaminoimidazole-4-carboxamide-1-(beta)-d-
PDBTitle: crystal structure of faicar synthetase (purp) from m.2 jannaschii complexed with amp
78c2pbzC_
not modelled 99.2 13 PDB header:ligase
Chain: C: PDB Molecule:hypothetical protein;
PDBTitle: crystal structure of an imp biosynthesis protein purp from2 thermococcus kodakaraensis
79c2cqyA_
not modelled 99.1 18 PDB header:ligase
Chain: A: PDB Molecule:propionyl-coa carboxylase alpha chain,
PDBTitle: solution structure of b domain from human propionyl-coa2 carboxylase alpha subunit
80d1kjqa1
not modelled 98.8 13 Fold:Barrel-sandwich hybrid
Superfamily:Rudiment single hybrid motif
Family:BC C-terminal domain-like
81c1wr2A_
not modelled 98.8 12 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:hypothetical protein ph1789;
PDBTitle: crystal structure of ph1788 from pyrococcus horikoshii ot3
82c2nu9E_
not modelled 98.7 19 PDB header:ligase
Chain: E: PDB Molecule:succinyl-coa synthetase beta chain;
PDBTitle: c123at mutant of e. coli succinyl-coa synthetase2 orthorhombic crystal form
83d2pbza2
not modelled 98.7 14 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:PurP ATP-binding domain-like
84d1a9xa4
not modelled 98.6 14 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
85d2nu7b2
not modelled 98.5 22 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
86d1eucb2
not modelled 98.4 16 Fold:ATP-grasp
Superfamily:Glutathione synthetase ATP-binding domain-like
Family:Succinyl-CoA synthetase, beta-chain, N-terminal domain
87c1eucB_
not modelled 98.4 20 PDB header:ligase
Chain: B: PDB Molecule:succinyl-coa synthetase, beta chain;
PDBTitle: crystal structure of dephosphorylated pig heart, gtp-2 specific succinyl-coa synthetase
88d3etja2
not modelled 98.2 98 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
89c3tinA_
not modelled 98.2 8 PDB header:ligase
Chain: A: PDB Molecule:ttl protein;
PDBTitle: tubulin tyrosine ligase
90d1ulza2
not modelled 97.7 22 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
91d1a9xa3
not modelled 97.7 16 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
92d2j9ga2
not modelled 97.6 12 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
93c3mwdA_
not modelled 97.5 13 PDB header:transferase
Chain: A: PDB Molecule:atp-citrate synthase;
PDBTitle: truncated human atp-citrate lyase with citrate bound
94d1iowa1
not modelled 97.5 15 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:D-Alanine ligase N-terminal domain
95c3gpiA_
not modelled 97.4 23 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:nad-dependent epimerase/dehydratase;
PDBTitle: structure of putative nad-dependent epimerase/dehydratase2 from methylobacillus flagellatus
96c3dhnA_
not modelled 97.4 13 PDB header:isomerase, lyase
Chain: A: PDB Molecule:nad-dependent epimerase/dehydratase;
PDBTitle: crystal structure of the putative epimerase q89z24_bactn2 from bacteroides thetaiotaomicron. northeast structural3 genomics consortium target btr310.
97d1hdoa_
not modelled 97.4 14 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
98c2q1wC_
not modelled 97.3 23 PDB header:sugar binding protein
Chain: C: PDB Molecule:putative nucleotide sugar epimerase/ dehydratase;
PDBTitle: crystal structure of the bordetella bronchiseptica enzyme wbmh in2 complex with nad+
99d1gsoa2
not modelled 97.2 23 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
100d2c5aa1
not modelled 97.2 6 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
101c3dojA_
not modelled 97.2 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:dehydrogenase-like protein;
PDBTitle: structure of glyoxylate reductase 1 from arabidopsis2 (atglyr1)
102d1f0ya2
not modelled 97.1 29 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
103d2jfga1
not modelled 97.1 15 Fold:MurCD N-terminal domain
Superfamily:MurCD N-terminal domain
Family:MurCD N-terminal domain
104d1n1ea2
not modelled 96.9 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
105d1wdka3
not modelled 96.9 23 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain
106c1m75B_
not modelled 96.8 29 PDB header:oxidoreductase
Chain: B: PDB Molecule:3-hydroxyacyl-coa dehydrogenase;
PDBTitle: crystal structure of the n208s mutant of l-3-hydroxyacyl-2 coa dehydrogenase in complex with nad and acetoacetyl-coa
107c3c1oA_
not modelled 96.8 19 PDB header:oxidoreductase
Chain: A: PDB Molecule:eugenol synthase;
PDBTitle: the multiple phenylpropene synthases in both clarkia2 breweri and petunia hybrida represent two distinct lineages
108c2f00A_
not modelled 96.8 14 PDB header:ligase
Chain: A: PDB Molecule:udp-n-acetylmuramate--l-alanine ligase;
PDBTitle: escherichia coli murc
109c3allA_
not modelled 96.8 23 PDB header:oxidoreductase
Chain: A: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid oxygenase;
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic acid2 oxygenase, mutant y270a
110d1vkza2
not modelled 96.8 18 Fold:PreATP-grasp domain
Superfamily:PreATP-grasp domain
Family:BC N-terminal domain-like
111c3kd9B_
not modelled 96.7 21 PDB header:oxidoreductase
Chain: B: PDB Molecule:coenzyme a disulfide reductase;
PDBTitle: crystal structure of pyridine nucleotide disulfide oxidoreductase from2 pyrococcus horikoshii
112c3rfxB_
not modelled 96.7 32 PDB header:oxidoreductase
Chain: B: PDB Molecule:uronate dehydrogenase;
PDBTitle: crystal structure of uronate dehydrogenase from agrobacterium2 tumefaciens, y136a mutant complexed with nad
113c3plnA_
not modelled 96.7 12 PDB header:oxidoreductase
Chain: A: PDB Molecule:udp-glucose 6-dehydrogenase;
PDBTitle: crystal structure of klebsiella pneumoniae udp-glucose 6-dehydrogenase2 complexed with udp-glucose
114c2x4gA_
not modelled 96.7 19 PDB header:isomerase
Chain: A: PDB Molecule:nucleoside-diphosphate-sugar epimerase;
PDBTitle: crystal structure of pa4631, a nucleoside-diphosphate-sugar2 epimerase from pseudomonas aeruginosa
115d1bxka_
not modelled 96.7 18 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:Tyrosine-dependent oxidoreductases
116c3sc6F_
not modelled 96.7 29 PDB header:oxidoreductase
Chain: F: PDB Molecule:dtdp-4-dehydrorhamnose reductase;
PDBTitle: 2.65 angstrom resolution crystal structure of dtdp-4-dehydrorhamnose2 reductase (rfbd) from bacillus anthracis str. ames in complex with3 nadp
117c3ktdC_
not modelled 96.6 16 PDB header:oxidoreductase
Chain: C: PDB Molecule:prephenate dehydrogenase;
PDBTitle: crystal structure of a putative prephenate dehydrogenase (cgl0226)2 from corynebacterium glutamicum atcc 13032 at 2.60 a resolution
118d1seza1
not modelled 96.6 24 Fold:FAD/NAD(P)-binding domain
Superfamily:FAD/NAD(P)-binding domain
Family:FAD-linked reductases, N-terminal domain
119c3gmbB_
not modelled 96.6 23 PDB header:oxidoreductase
Chain: B: PDB Molecule:2-methyl-3-hydroxypyridine-5-carboxylic acid
PDBTitle: crystal structure of 2-methyl-3-hydroxypyridine-5-carboxylic2 acid oxygenase
120d2f1ka2
not modelled 96.6 21 Fold:NAD(P)-binding Rossmann-fold domains
Superfamily:NAD(P)-binding Rossmann-fold domains
Family:6-phosphogluconate dehydrogenase-like, N-terminal domain

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