Phyre 2 Results for P19769

Phyre Home | Retrieve Phyre Job Id

Email | l.a.kelley@imperial.ac.uk
Description | P19769
Date | Thu Jan 5 11:37:35 GMT 2012
Unique Job ID | 0a17b381faf220ee

Summary |

Top model
Image coloured by rainbow N → C terminus
| Close Jmol

Model (left) based on template c3f9kV_
Top template information
PDB header:viral protein, recombination Chain: V: PDB Molecule:integrase; PDBTitle: two domain fragment of hiv-2 integrase in complex with ledgf ibd
Confidence and coverage
Confidence: | 99.7% | Coverage: | 51%
143 residues ( 51% of your sequence) have been modelled with 99.7% confidence by the single highest scoring template.
Additional confident templates have been detected (see Domain analysis) which cover other regions of your sequence.
271 residues ( 96%) 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 |  | M | K | V | L | N | E | L | R | Q | F | Y | P | L | D | E | L | L | R | A | A | E | I | P | R | S | T | F | Y | Y | H | L | K | A | L | S | K | P | D | K | Y | A | D | V | K | K | R | I | S | E | I | Y | H | E | N | R | G | R | Y | G | Y
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? | ? | ? | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 70 | . | . | . | . | . | . | . | . | . | 80 | . | . | . | . | . | . | . | . | . | 90 | . | . | . | . | . | . | . | . | . | 100 | . | . | . | . | . | . | . | . | . | 110 | . | . | . | . | . | . | . | . | . | 120
Sequence |  | R | R | V | T | L | S | L | H | R | E | G | K | Q | I | N | H | K | A | V | Q | R | L | M | G | T | L | S | L | K | A | A | I | K | V | K | R | Y | R | S | Y | R | G | E | V | G | Q | T | A | P | N | V | L | Q | R | D | F | K | A | T | R
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  | ? | ? | ? | ? | ? |  |  | ? |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 130 | . | . | . | . | . | . | . | . | . | 140 | . | . | . | . | . | . | . | . | . | 150 | . | . | . | . | . | . | . | . | . | 160 | . | . | . | . | . | . | . | . | . | 170 | . | . | . | . | . | . | . | . | . | 180
Sequence |  | P | N | E | K | W | V | T | D | V | T | E | F | A | V | N | G | R | K | L | Y | L | S | P | V | I | D | L | F | N | N | E | V | I | S | Y | S | L | S | E | R | P | V | M | N | M | V | E | N | M | L | D | Q | A | F | K | K | L | N | P | H
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 190 | . | . | . | . | . | . | . | . | . | 200 | . | . | . | . | . | . | . | . | . | 210 | . | . | . | . | . | . | . | . | . | 220 | . | . | . | . | . | . | . | . | . | 230 | . | . | . | . | . | . | . | . | . | 240
Sequence |  | E | H | P | V | L | H | S | D | Q | G | W | Q | Y | R | M | R | R | Y | Q | N | I | L | K | E | H | G | I | K | Q | S | M | S | R | K | G | N | C | L | D | N | A | V | V | E | C | F | F | G | T | L | K | S | E | C | F | Y | L | D | E | F
Secondary structure |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
SS confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
Disorder confidence |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |  |
|  | . | . | . | . | . | . | . | . | . | 250 | . | . | . | . | . | . | . | . | . | 260 | . | . | . | . | . | . | . | . | . | 270 | . | . | . | . | . | . | . | . | . | 280 | . | . | .
Sequence |  | S | N | I | S | E | L | K | D | A | V | T | E | Y | I | E | Y | Y | N | S | R | R | I | S | L | K | L | K | G | L | T | P | I | E | Y | R | N | Q | T | Y | M | P | R | V
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

Rank | Aligned region
--- | ---
1 |
| c3f9kV_ |

### PDB 3f9k chain V

Region: 120 - 273
Aligned: 143
Modelled: 154
Confidence: 99.7%
Identity: 18%
PDB header:viral protein, recombination
Chain: V: PDB Molecule:integrase;
PDBTitle: two domain fragment of hiv-2 integrase in complex with ledgf ibd

Phyre2
2 |
| d1bcoa2 |

### PDB 1bco chain A domain 2

Region: 120 - 281
Aligned: 162
Modelled: 162
Confidence: 99.6%
Identity: 14%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: mu transposase, core domain

Phyre2
3 |
| d1c0ma2 |

### PDB 1c0m chain A domain 2

Region: 120 - 273
Aligned: 149
Modelled: 154
Confidence: 99.6%
Identity: 17%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
4 |
| d1asua_ |

### PDB 1asu chain A

Region: 120 - 271
Aligned: 147
Modelled: 152
Confidence: 99.6%
Identity: 16%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
5 |
| c1c0mA_ |

### PDB 1c0m chain A

Region: 118 - 273
Aligned: 151
Modelled: 156
Confidence: 99.6%
Identity: 17%
PDB header:transferase
Chain: A: PDB Molecule:protein (integrase);
PDBTitle: crystal structure of rsv two-domain integrase

Phyre2
6 |
| d1exqa_ |

### PDB 1exq chain A

Region: 120 - 280
Aligned: 142
Modelled: 161
Confidence: 99.5%
Identity: 15%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
7 |
| c3nf9A_ |

### PDB 3nf9 chain A

Region: 122 - 274
Aligned: 142
Modelled: 153
Confidence: 99.5%
Identity: 18%
PDB header:hydrolase/hydrolase inhibitor
Chain: A: PDB Molecule:integrase;
PDBTitle: structural basis for a new mechanism of inhibition of hiv integrase2 identified by fragment screening and structure based design

Phyre2
8 |
| c1ex4A_ |

### PDB 1ex4 chain A

Region: 120 - 274
Aligned: 141
Modelled: 155
Confidence: 99.4%
Identity: 18%
PDB header:viral protein
Chain: A: PDB Molecule:integrase;
PDBTitle: hiv-1 integrase catalytic core and c-terminal domain

Phyre2
9 |
| c3kksB_ |

### PDB 3kks chain B

Region: 123 - 277
Aligned: 143
Modelled: 155
Confidence: 99.3%
Identity: 21%
PDB header:dna binding protein
Chain: B: PDB Molecule:integrase;
PDBTitle: crystal structure of catalytic core domain of biv integrase in crystal2 form ii

Phyre2
10 |
| c1k6yB_ |

### PDB 1k6y chain B

Region: 114 - 273
Aligned: 140
Modelled: 160
Confidence: 99.3%
Identity: 15%
PDB header:transferase
Chain: B: PDB Molecule:integrase;
PDBTitle: crystal structure of a two-domain fragment of hiv-1 integrase

Phyre2
11 |
| c1bcoA_ |

### PDB 1bco chain A

Region: 123 - 283
Aligned: 160
Modelled: 161
Confidence: 99.3%
Identity: 14%
PDB header:transposase
Chain: A: PDB Molecule:bacteriophage mu transposase;
PDBTitle: bacteriophage mu transposase core domain

Phyre2
12 |
| d1hyva_ |

### PDB 1hyv chain A

Region: 122 - 277
Aligned: 133
Modelled: 156
Confidence: 99.3%
Identity: 16%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
13 |
| d1c6va_ |

### PDB 1c6v chain A

Region: 124 - 273
Aligned: 128
Modelled: 150
Confidence: 99.3%
Identity: 16%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
14 |
| d1cxqa_ |

### PDB 1cxq chain A

Region: 120 - 259
Aligned: 133
Modelled: 140
Confidence: 99.3%
Identity: 18%
Fold: Ribonuclease H-like motif
Superfamily: Ribonuclease H-like
Family: Retroviral integrase, catalytic domain

Phyre2
15 |
| c3hosA_ |

### PDB 3hos chain A

Region: 3 - 255
Aligned: 243
Modelled: 253
Confidence: 99.2%
Identity: 14%
PDB header:transferase, dna binding protein/dna
Chain: A: PDB Molecule:transposable element mariner, complete cds;
PDBTitle: crystal structure of the mariner mos1 paired end complex with mg

Phyre2
16 |
| c3hpgC_ |

### PDB 3hpg chain C

Region: 120 - 274
Aligned: 143
Modelled: 155
Confidence: 99.1%
Identity: 17%
PDB header:transferase
Chain: C: PDB Molecule:integrase;
PDBTitle: visna virus integrase (residues 1-219) in complex with ledgf2 ibd: examples of open integrase dimer-dimer interfaces

Phyre2
17 |
| c3l2tB_ |

### PDB 3l2t chain B

Region: 118 - 273
Aligned: 149
Modelled: 156
Confidence: 99.1%
Identity: 21%
PDB header:recombination/dna
Chain: B: PDB Molecule:integrase;
PDBTitle: crystal structure of the prototype foamy virus (pfv) intasome in2 complex with magnesium and mk0518 (raltegravir)

Phyre2
18 |
| c3dlrA_ |

### PDB 3dlr chain A

Region: 119 - 273
Aligned: 138
Modelled: 155
Confidence: 98.6%
Identity: 22%
PDB header:transferase
Chain: A: PDB Molecule:integrase;
PDBTitle: crystal structure of the catalytic core domain from pfv2 integrase

Phyre2
19 |
| c6paxA_ |

### PDB 6pax chain A

Region: 2 - 87
Aligned: 86
Modelled: 86
Confidence: 97.9%
Identity: 12%
PDB header:gene regulation/dna
Chain: A: PDB Molecule:homeobox protein pax-6;
PDBTitle: crystal structure of the human pax-6 paired domain-dna2 complex reveals a general model for pax protein-dna3 interactions

Phyre2
20 |
| c1u78A_ |

### PDB 1u78 chain A

Region: 2 - 87
Aligned: 82
Modelled: 86
Confidence: 97.6%
Identity: 11%
PDB header:dna binding protein/dna
Chain: A: PDB Molecule:transposable element tc3 transposase;
PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna

Phyre2
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 |

Detailed template information |

# | Template | Alignment Coverage | 3D Model | Confidence | % i.d. | Template Information
--- | --- | --- | --- | --- | --- | ---
1 | c3f9kV_ |
|  | 99.7 | 18 | PDB header:viral protein, recombination Chain: V: PDB Molecule:integrase; PDBTitle: two domain fragment of hiv-2 integrase in complex with ledgf ibd
2 | d1bcoa2 |
|  | 99.6 | 14 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:mu transposase, core domain
3 | d1c0ma2 |
|  | 99.6 | 17 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
4 | d1asua_ |
|  | 99.6 | 16 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
5 | c1c0mA_ |
|  | 99.6 | 17 | PDB header:transferase Chain: A: PDB Molecule:protein (integrase); PDBTitle: crystal structure of rsv two-domain integrase
6 | d1exqa_ |
|  | 99.5 | 15 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
7 | c3nf9A_ |
|  | 99.5 | 18 | PDB header:hydrolase/hydrolase inhibitor Chain: A: PDB Molecule:integrase; PDBTitle: structural basis for a new mechanism of inhibition of hiv integrase2 identified by fragment screening and structure based design
8 | c1ex4A_ |
|  | 99.4 | 18 | PDB header:viral protein Chain: A: PDB Molecule:integrase; PDBTitle: hiv-1 integrase catalytic core and c-terminal domain
9 | c3kksB_ |
|  | 99.3 | 21 | PDB header:dna binding protein Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of catalytic core domain of biv integrase in crystal2 form ii
10 | c1k6yB_ |
|  | 99.3 | 15 | PDB header:transferase Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of a two-domain fragment of hiv-1 integrase
11 | c1bcoA_ |
|  | 99.3 | 14 | PDB header:transposase Chain: A: PDB Molecule:bacteriophage mu transposase; PDBTitle: bacteriophage mu transposase core domain
12 | d1hyva_ |
|  | 99.3 | 16 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
13 | d1c6va_ |
|  | 99.3 | 16 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
14 | d1cxqa_ |
|  | 99.3 | 18 | Fold:Ribonuclease H-like motif Superfamily:Ribonuclease H-like Family:Retroviral integrase, catalytic domain
15 | c3hosA_ |
|  | 99.2 | 14 | PDB header:transferase, dna binding protein/dna Chain: A: PDB Molecule:transposable element mariner, complete cds; PDBTitle: crystal structure of the mariner mos1 paired end complex with mg
16 | c3hpgC_ |
|  | 99.1 | 17 | PDB header:transferase Chain: C: PDB Molecule:integrase; PDBTitle: visna virus integrase (residues 1-219) in complex with ledgf2 ibd: examples of open integrase dimer-dimer interfaces
17 | c3l2tB_ |
|  | 99.1 | 21 | PDB header:recombination/dna Chain: B: PDB Molecule:integrase; PDBTitle: crystal structure of the prototype foamy virus (pfv) intasome in2 complex with magnesium and mk0518 (raltegravir)
18 | c3dlrA_ |
|  | 98.6 | 22 | PDB header:transferase Chain: A: PDB Molecule:integrase; PDBTitle: crystal structure of the catalytic core domain from pfv2 integrase
19 | c6paxA_ |
|  | 97.9 | 12 | PDB header:gene regulation/dna Chain: A: PDB Molecule:homeobox protein pax-6; PDBTitle: crystal structure of the human pax-6 paired domain-dna2 complex reveals a general model for pax protein-dna3 interactions
20 | c1u78A_ |
|  | 97.6 | 11 | PDB header:dna binding protein/dna Chain: A: PDB Molecule:transposable element tc3 transposase; PDBTitle: structure of the bipartite dna-binding domain of tc32 transposase bound to transposon dna
21 | d1pdnc_ |
| not modelled | 97.6 | 12 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain
22 | c2f7tA_ |
| not modelled | 97.3 | 11 | PDB header:dna binding protein Chain: A: PDB Molecule:mos1 transposase; PDBTitle: crystal structure of the catalytic domain of mos1 mariner2 transposase
23 | c3f2kB_ |
| not modelled | 97.3 | 18 | PDB header:transferase Chain: B: PDB Molecule:histone-lysine n-methyltransferase setmar; PDBTitle: structure of the transposase domain of human histone-lysine2 n-methyltransferase setmar
24 | c2k27A_ |
| not modelled | 97.0 | 9 | PDB header:transcription regulator Chain: A: PDB Molecule:paired box protein pax-8; PDBTitle: solution structure of human pax8 paired box domain
25 | d2jn6a1 |
| not modelled | 96.4 | 17 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like
26 | c1hlvA_ |
| not modelled | 95.9 | 21 | PDB header:dna binding protein/dna Chain: A: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of cenp-b(1-129) complexed with the cenp-2 b box dna
27 | c3hefB_ |
| not modelled | 95.4 | 16 | PDB header:viral protein Chain: B: PDB Molecule:gene 1 protein; PDBTitle: crystal structure of the bacteriophage sf6 terminase small2 subunit
28 | c2elhA_ |
| not modelled | 95.3 | 16 | PDB header:dna binding protein Chain: A: PDB Molecule:cg11849-pa; PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa
29 | c1umqA_ |
| not modelled | 94.3 | 18 | PDB header:dna-binding protein Chain: A: PDB Molecule:photosynthetic apparatus regulatory protein; PDBTitle: solution structure and dna binding of the effector domain2 from the global regulator prra(rega) from r. sphaeroides:3 insights into dna binding specificity
30 | d1umqa_ |
| not modelled | 94.3 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
31 | d1g2ha_ |
| not modelled | 93.1 | 9 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
32 | d1fipa_ |
| not modelled | 93.0 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
33 | d1rzsa_ |
| not modelled | 92.8 | 16 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
34 | d1etxa_ |
| not modelled | 92.6 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
35 | d1ntca_ |
| not modelled | 92.4 | 19 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
36 | c1z4hA_ |
| not modelled | 92.0 | 17 | PDB header:protein binding, dna binding protein Chain: A: PDB Molecule:tor inhibition protein; PDBTitle: the response regulator tori belongs to a new family of2 atypical excisionase
37 | c3bd1B_ |
| not modelled | 91.3 | 11 | PDB header:transcription Chain: B: PDB Molecule:cro protein; PDBTitle: structure of the cro protein from putative prophage element xfaso 1 in2 xylella fastidiosa strain ann-1
38 | d1k78a1 |
| not modelled | 91.3 | 9 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain
39 | c3e7lD_ |
| not modelled | 91.2 | 27 | PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain
40 | d2coba1 |
| not modelled | 91.0 | 19 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Psq domain
41 | c3fmyA_ |
| not modelled | 90.8 | 8 | PDB header:dna binding protein Chain: A: PDB Molecule:hth-type transcriptional regulator mqsa PDBTitle: structure of the c-terminal domain of the e. coli protein2 mqsa (ygit/b3021)
42 | d1etob_ |
| not modelled | 90.7 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like
43 | c3bs3A_ |
| not modelled | 90.5 | 14 | PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis
44 | d6paxa1 |
| not modelled | 90.5 | 6 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain
45 | d1hlva1 |
| not modelled | 90.2 | 27 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding
46 | d1utxa_ |
| not modelled | 90.2 | 21 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
47 | d1adra_ |
| not modelled | 89.9 | 5 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
48 | c3cecA_ |
| not modelled | 89.8 | 5 | PDB header:transcription Chain: A: PDB Molecule:putative antidote protein of plasmid maintenance system; PDBTitle: crystal structure of a putative antidote protein of plasmid2 maintenance system (npun_f2943) from nostoc punctiforme pcc 73102 at3 1.60 a resolution
49 | d2icta1 |
| not modelled | 89.7 | 26 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
50 | c2xcjB_ |
| not modelled | 89.3 | 16 | PDB header:viral protein Chain: B: PDB Molecule:c protein; PDBTitle: crystal structure of p2 c, the immunity repressor of2 temperate e. coli phage p2
51 | d1y9qa1 |
| not modelled | 89.3 | 19 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain
52 | c3omtA_ |
| not modelled | 89.0 | 8 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: putative antitoxin component, chu_2935 protein, from xre family from2 prevotella buccae.
53 | c2kpjA_ |
| not modelled | 89.0 | 16 | PDB header:transcription regulator Chain: A: PDB Molecule:sos-response transcriptional repressor, lexa; PDBTitle: solution structure of protein sos-response transcriptional2 repressor, lexa from eubacterium rectale. northeast3 structural genomics consortium target err9a
54 | c2rn7A_ |
| not modelled | 88.9 | 8 | PDB header:unknown function Chain: A: PDB Molecule:is629 orfa; PDBTitle: nmr solution structure of tnpe protein from shigella2 flexneri. northeast structural genomics target sfr125
55 | d1llib_ |
| not modelled | 88.9 | 7 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
56 | d2ppxa1 |
| not modelled | 88.3 | 20 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
57 | c2ppxA_ |
| not modelled | 88.3 | 20 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens
58 | d2b5aa1 |
| not modelled | 88.1 | 13 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
59 | c3b7hA_ |
| not modelled | 88.0 | 19 | PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11
60 | d2id3a1 |
| not modelled | 87.9 | 16 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
61 | d1t56a1 |
| not modelled | 87.8 | 28 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
62 | d2fbqa1 |
| not modelled | 87.2 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
63 | c2ebyA_ |
| not modelled | 87.1 | 11 | PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli
64 | c3f52A_ |
| not modelled | 87.0 | 14 | PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum
65 | c2iu5A_ |
| not modelled | 87.0 | 18 | PDB header:transcription Chain: A: PDB Molecule:hth-type dhaklm operon transcriptional activator dhas; PDBTitle: dihydroxyacetone kinase operon activator dhas
66 | c3clcC_ |
| not modelled | 86.9 | 8 | PDB header:transcription regulator/dna Chain: C: PDB Molecule:regulatory protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.esp1396i tetramer in complex with its natural 35 base-pair operator
67 | c3kjxD_ |
| not modelled | 86.9 | 15 | PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from silicibacter pomeroyi
68 | c3h5tA_ |
| not modelled | 86.9 | 17 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, laci family; PDBTitle: crystal structure of a transcriptional regulator, lacl2 family protein from corynebacterium glutamicum
69 | c3eusB_ |
| not modelled | 86.8 | 16 | PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi
70 | c2fjrB_ |
| not modelled | 86.8 | 15 | PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186
71 | c3b81A_ |
| not modelled | 86.7 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, acrr family; PDBTitle: crystal structure of predicted dna-binding transcriptional regulator2 of tetr/acrr family (np_350189.1) from clostridium acetobutylicum at3 2.10 a resolution
72 | d1lmb3_ |
| not modelled | 86.6 | 5 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors
73 | c3o60A_ |
| not modelled | 86.5 | 18 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin0861 protein; PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a
74 | d2fd5a1 |
| not modelled | 86.5 | 20 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
75 | c2jvlA_ |
| not modelled | 86.2 | 19 | PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei
76 | c3kkcB_ |
| not modelled | 86.1 | 23 | PDB header:transcription regulator Chain: B: PDB Molecule:tetr family transcriptional regulator; PDBTitle: the crystal structure of tetr transcriptional regulator from2 streptococcus agalactiae 2603v
77 | d2bjca1 |
| not modelled | 86.0 | 11 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator
78 | d2np5a1 |
| not modelled | 85.9 | 10 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
79 | d2vkva1 |
| not modelled | 85.9 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
80 | c3op9A_ |
| not modelled | 85.7 | 13 | PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua
81 | d2ao9a1 |
| not modelled | 85.6 | 25 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Nanomeric phage protein-like
82 | c3gn5B_ |
| not modelled | 85.6 | 8 | PDB header:dna binding protein Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021); PDBTitle: structure of the e. coli protein mqsa (ygit/b3021)
83 | c3ppbB_ |
| not modelled | 85.5 | 18 | PDB header:transcription regulator Chain: B: PDB Molecule:putative tetr family transcription regulator; PDBTitle: crystal structure of a putative tetr family transcription regulator2 (shew_3104) from shewanella sp. pv-4 at 2.10 a resolution
84 | d2fq4a1 |
| not modelled | 85.4 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
85 | c3t76A_ |
| not modelled | 85.3 | 28 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii
86 | c2ibdB_ |
| not modelled | 85.2 | 18 | PDB header:structural genomics, unknown function Chain: B: PDB Molecule:possible transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulatory protein2 rha5900
87 | c3f1bA_ |
| not modelled | 85.2 | 23 | PDB header:transcription regulator Chain: A: PDB Molecule:tetr-like transcriptional regulator; PDBTitle: the crystal structure of a tetr-like transcriptional regulator from2 rhodococcus sp. rha1.
88 | c1vi0B_ |
| not modelled | 85.2 | 18 | PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator
89 | d1j5ya1 |
| not modelled | 85.0 | 10 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like
90 | c3ivpD_ |
| not modelled | 85.0 | 14 | PDB header:dna binding protein Chain: D: PDB Molecule:putative transposon-related dna-binding protein; PDBTitle: the structure of a possible transposon-related dna-binding protein2 from clostridium difficile 630.
91 | d2iu5a1 |
| not modelled | 84.9 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
92 | d2oi8a1 |
| not modelled | 84.9 | 10 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
93 | d1jt6a1 |
| not modelled | 84.8 | 23 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
94 | d2vkea1 |
| not modelled | 84.8 | 20 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
95 | c3trbA_ |
| not modelled | 84.7 | 11 | PDB header:dna binding protein Chain: A: PDB Molecule:virulence-associated protein i; PDBTitle: structure of an addiction module antidote protein of a higa (higa)2 family from coxiella burnetii
96 | d1pb6a1 |
| not modelled | 84.6 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
97 | d1rkta1 |
| not modelled | 84.5 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
98 | d1r8da_ |
| not modelled | 84.5 | 10 | Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators
99 | d3c07a1 |
| not modelled | 84.4 | 15 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
100 | c2l0kA_ |
| not modelled | 84.3 | 15 | PDB header:transcription Chain: A: PDB Molecule:stage iii sporulation protein d; PDBTitle: nmr solution structure of a transcription factor spoiiid in complex2 with dna
101 | d1z0xa1 |
| not modelled | 84.1 | 10 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
102 | c2ef8A_ |
| not modelled | 84.0 | 16 | PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is
103 | c3he0A_ |
| not modelled | 84.0 | 18 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: the structure of a putative transcriptional regulator tetr family2 protein from vibrio parahaemolyticus.
104 | d1vi0a1 |
| not modelled | 83.9 | 14 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
105 | d1zk8a1 |
| not modelled | 83.9 | 13 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
106 | d1v7ba1 |
| not modelled | 83.9 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
107 | d2ofya1 |
| not modelled | 83.9 | 14 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
108 | d1mkma1 |
| not modelled | 83.7 | 9 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain
109 | c3pasA_ |
| not modelled | 83.7 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:tetr family transcription regulator; PDBTitle: crystal structure of a tetr family transcription regulator (maqu_1417)2 from marinobacter aquaeolei vt8 at 1.90 a resolution
110 | c2lcvA_ |
| not modelled | 83.6 | 12 | PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation
111 | c2iaiA_ |
| not modelled | 83.6 | 25 | PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative transcriptional regulator sco3833; PDBTitle: crystal structure of sco3833, a member of the tetr transcriptional2 regulator family from streptomyces coelicolor a3
112 | d2g3ba1 |
| not modelled | 83.6 | 18 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
113 | d2o7ta1 |
| not modelled | 83.5 | 13 | Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain
114 | c2eh3A_ |
| not modelled | 83.5 | 18 | PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of aq_1058, a transcriptional regulator (terr/acrr2 family) from aquifex aeolicus vf5
115 | c3gpvA_ |
| not modelled | 83.4 | 15 | PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of a transcriptional regulator, merr2 family from bacillus thuringiensis
116 | c2guhA_ |
| not modelled | 83.4 | 9 | PDB header:transcription Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of the putative tetr-family transcriptional2 regulator from rhodococcus sp. rha1
117 | c1bdhA_ |
| not modelled | 83.4 | 8 | PDB header:transcription/dna Chain: A: PDB Molecule:protein (purine repressor); PDBTitle: purine repressor mutant-hypoxanthine-palindromic operator2 complex
118 | d1y7ya1 |
| not modelled | 83.3 | 10 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like
119 | c1bjzA_ |
| not modelled | 83.3 | 20 | PDB header:transcription regulation Chain: A: PDB Molecule:tetracycline repressor; PDBTitle: tetracycline chelated mg2+-ion initiates helix unwinding for tet2 repressor induction
120 | d1x57a1 |
| not modelled | 83.3 | 8 | Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like

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