Phyre Home Retrieve Phyre Job Id
Emaill.a.kelley@imperial.ac.uk
DescriptionP23841
DateThu Jan 5 11:39:47 GMT 2012
Unique Job ID1c005f08b152a89f

Summary 

Top model
Image coloured by rainbow N → C terminus
Model (left) based on template c1iz1B_
Top template information
PDB header:dna binding protein
Chain: B: PDB Molecule:lysr-type regulatory protein;
PDBTitle: crystal structure of cbnr, a lysr family transcriptional2 regulator
Confidence and coverage
Confidence:100.0% Coverage: 98%
287 residues ( 98% 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  MERVYRTDLKLLRYFLAVAEELHFGRAAARLNMSQPPLSIHIKELENQLGTQLFIRHSRS
Secondary structure 
SS confidence 
Disorder  ??????
Disorder confidence 
 
   .........70.........80.........90.........100.........110.........120
Sequence  VVLTHAGKILMEESRRLLVNANNVLARIEQIGRGEAGRIELGVVGTAMWGRMRPVMRRFL
Secondary structure 
SS confidence 
Disorder 
??????
??
Disorder confidence 
 
   .........130.........140.........150.........160.........170.........180
Sequence  RENPNVDVLFREKMPAMQMALLERRELDAGIWRMATEPPTGFTSLRLHESAFLVAMPEEH
Secondary structure 
SS confidence 
Disorder 
Disorder confidence 
 
   .........190.........200.........210.........220.........230.........240
Sequence  HLSSFSTVPLEALRDEYFVTMPPVYTDWDFLQRVCQQVGFSPVVIREVNEPQTVLAMVSM
Secondary structure 
SS confidence 
Disorder 
???
?
Disorder confidence 
 
   .........250.........260.........270.........280.........290....
Sequence  GIGITLIADSYAQMNWPGVIFRPLKQRIPADLYIVYETQQVTPAMVKLLAALTQ
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 1iz1 chain B

3D model

Region: 7 - 294
Aligned: 287
Modelled: 288
Confidence: 100.0%
Identity: 24%
PDB header:dna binding protein
Chain: B: PDB Molecule:lysr-type regulatory protein;
PDBTitle: crystal structure of cbnr, a lysr family transcriptional2 regulator

Phyre2

PDB 2esn chain C

3D model

Region: 4 - 294
Aligned: 287
Modelled: 291
Confidence: 100.0%
Identity: 18%
PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: the crystal structure of probable transcriptional regulator pa04772 from pseudomonas aeruginosa

Phyre2

PDB 3hhg chain F

3D model

Region: 6 - 294
Aligned: 285
Modelled: 289
Confidence: 100.0%
Identity: 18%
PDB header:transcription regulator
Chain: F: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: structure of crga, a lysr-type transcriptional regulator from2 neisseria meningitidis.

Phyre2

PDB 3fzj chain C

3D model

Region: 7 - 294
Aligned: 288
Modelled: 288
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: C: PDB Molecule:lysr type regulator of tsambcd;
PDBTitle: tsar low resolution crystal structure, tetragonal form

Phyre2

PDB 3t1b chain B

3D model

Region: 7 - 294
Aligned: 282
Modelled: 288
Confidence: 100.0%
Identity: 18%
PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: crystal structure of the full-length aphb n100e variant

Phyre2

PDB 3fzv chain C

3D model

Region: 7 - 294
Aligned: 275
Modelled: 288
Confidence: 100.0%
Identity: 19%
PDB header:transcription regulator
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of pa01 protein, putative lysr family2 transcriptional regulator from pseudomonas aeruginosa

Phyre2

PDB 3isp chain A

3D model

Region: 6 - 294
Aligned: 280
Modelled: 289
Confidence: 100.0%
Identity: 17%
PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator
PDBTitle: crystal structure of argp from mycobacterium tuberculosis

Phyre2

PDB 1b9n chain A

3D model

Region: 1 - 134
Aligned: 133
Modelled: 134
Confidence: 99.9%
Identity: 11%
PDB header:transcription
Chain: A: PDB Molecule:protein (mode);
PDBTitle: regulator from escherichia coli

Phyre2

PDB 3m1e chain A

3D model

Region: 7 - 93
Aligned: 87
Modelled: 87
Confidence: 99.9%
Identity: 40%
PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of benm_dbd

Phyre2

PDB 2esn chain A domain 1

3D model

Region: 4 - 89
Aligned: 86
Modelled: 86
Confidence: 99.9%
Identity: 26%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: LysR-like transcriptional regulators

Phyre2

PDB 1b9m chain A domain 1

3D model

Region: 7 - 99
Aligned: 93
Modelled: 93
Confidence: 99.9%
Identity: 15%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: N-terminal domain of molybdate-dependent transcriptional regulator ModE

Phyre2

PDB 1ixc chain A domain 1

3D model

Region: 8 - 95
Aligned: 83
Modelled: 88
Confidence: 99.8%
Identity: 39%
Fold: DNA/RNA-binding 3-helical bundle
Superfamily: "Winged helix" DNA-binding domain
Family: LysR-like transcriptional regulators

Phyre2

PDB 2fyi chain A domain 1

3D model

Region: 92 - 294
Aligned: 203
Modelled: 203
Confidence: 99.8%
Identity: 15%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2

PDB 2hxr chain A

3D model

Region: 98 - 294
Aligned: 196
Modelled: 197
Confidence: 99.8%
Identity: 18%
PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator cynr;
PDBTitle: structure of the ligand binding domain of e. coli cynr, a2 transcriptional regulator controlling cyanate metabolism

Phyre2

PDB 1ixc chain A domain 2

3D model

Region: 97 - 294
Aligned: 197
Modelled: 198
Confidence: 99.7%
Identity: 17%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2

PDB 2h9q chain C

3D model

Region: 96 - 294
Aligned: 199
Modelled: 199
Confidence: 99.7%
Identity: 18%
PDB header:transcription
Chain: C: PDB Molecule:hth-type transcriptional regulator catm;
PDBTitle: crystal structure of the effector binding domain of a catm2 variant (r156h)

Phyre2

PDB 2ijl chain B

3D model

Region: 6 - 87
Aligned: 81
Modelled: 82
Confidence: 99.7%
Identity: 17%
PDB header:transcription
Chain: B: PDB Molecule:molybdenum-binding transcriptional repressor;
PDBTitle: the structure of a putative mode from agrobacterium tumefaciens.

Phyre2

PDB 1al3 chain A

3D model

Region: 95 - 294
Aligned: 200
Modelled: 200
Confidence: 99.7%
Identity: 16%
Fold: Periplasmic binding protein-like II
Superfamily: Periplasmic binding protein-like II
Family: Phosphate binding protein-like

Phyre2

PDB 1al3 chain A

3D model

Region: 95 - 294
Aligned: 200
Modelled: 200
Confidence: 99.7%
Identity: 16%
PDB header:transcription regulation
Chain: A: PDB Molecule:cys regulon transcriptional activator cysb;
PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes

Phyre2

PDB 2f7c chain A

3D model

Region: 96 - 294
Aligned: 199
Modelled: 199
Confidence: 99.7%
Identity: 16%
PDB header:gene regulation
Chain: A: PDB Molecule:hth-type transcriptional regulator catm;
PDBTitle: catm effector binding domain with its effector cis,cis-muconate

Phyre2
1
c1iz1B_
2
c2esnC_
3
c3hhgF_
4
c3fzjC_
5
c3t1bB_
6
c3fzvC_
7
c3ispA_
8
c1b9nA_
9
c3m1eA_
10
d2esna1
11
d1b9ma1
12
d1ixca1
13
d2fyia1
14
c2hxrA_
15
d1ixca2
16
c2h9qC_
17
c2ijlB_
18
d1al3a_
19
c1al3A_
20
c2f7cA_
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



Detailed template information 

#
Template Alignment Coverage3D Model Confidence
% i.d. Template Information
1c1iz1B_
100.0 24 PDB header:dna binding protein
Chain: B: PDB Molecule:lysr-type regulatory protein;
PDBTitle: crystal structure of cbnr, a lysr family transcriptional2 regulator
2c2esnC_
100.0 18 PDB header:structural genomics, unknown function
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: the crystal structure of probable transcriptional regulator pa04772 from pseudomonas aeruginosa
3c3hhgF_
100.0 18 PDB header:transcription regulator
Chain: F: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: structure of crga, a lysr-type transcriptional regulator from2 neisseria meningitidis.
4c3fzjC_
100.0 19 PDB header:transcription regulator
Chain: C: PDB Molecule:lysr type regulator of tsambcd;
PDBTitle: tsar low resolution crystal structure, tetragonal form
5c3t1bB_
100.0 18 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: crystal structure of the full-length aphb n100e variant
6c3fzvC_
100.0 19 PDB header:transcription regulator
Chain: C: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of pa01 protein, putative lysr family2 transcriptional regulator from pseudomonas aeruginosa
7c3ispA_
100.0 17 PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator
PDBTitle: crystal structure of argp from mycobacterium tuberculosis
8c1b9nA_
99.9 11 PDB header:transcription
Chain: A: PDB Molecule:protein (mode);
PDBTitle: regulator from escherichia coli
9c3m1eA_
99.9 40 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of benm_dbd
10d2esna1
99.9 26 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LysR-like transcriptional regulators
11d1b9ma1
99.9 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:N-terminal domain of molybdate-dependent transcriptional regulator ModE
12d1ixca1
99.8 39 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:LysR-like transcriptional regulators
13d2fyia1
99.8 15 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
14c2hxrA_
99.8 18 PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional regulator cynr;
PDBTitle: structure of the ligand binding domain of e. coli cynr, a2 transcriptional regulator controlling cyanate metabolism
15d1ixca2
99.7 17 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
16c2h9qC_
99.7 18 PDB header:transcription
Chain: C: PDB Molecule:hth-type transcriptional regulator catm;
PDBTitle: crystal structure of the effector binding domain of a catm2 variant (r156h)
17c2ijlB_
99.7 17 PDB header:transcription
Chain: B: PDB Molecule:molybdenum-binding transcriptional repressor;
PDBTitle: the structure of a putative mode from agrobacterium tumefaciens.
18d1al3a_
99.7 16 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
19c1al3A_
99.7 16 PDB header:transcription regulation
Chain: A: PDB Molecule:cys regulon transcriptional activator cysb;
PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes
20c2f7cA_
99.7 16 PDB header:gene regulation
Chain: A: PDB Molecule:hth-type transcriptional regulator catm;
PDBTitle: catm effector binding domain with its effector cis,cis-muconate
21c3jv9B_
not modelled 99.7 18 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: the structure of a reduced form of oxyr from n. meningitidis
22c2h9bB_
not modelled 99.7 22 PDB header:transcription
Chain: B: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: crystal structure of the effector binding domain of a benm variant2 (benm r156h/t157s)
23c3fd3A_
not modelled 99.7 10 PDB header:transcription regulator
Chain: A: PDB Molecule:chromosome replication initiation inhibitor protein;
PDBTitle: structure of the c-terminal domains of a lysr family protein from2 agrobacterium tumefaciens str. c58.
24c2ql3G_
not modelled 99.7 21 PDB header:transcription
Chain: G: PDB Molecule:probable transcriptional regulator, lysr family protein;
PDBTitle: crystal structure of the c-terminal domain of a probable lysr family2 transcriptional regulator from rhodococcus sp. rha1
25c2f78A_
not modelled 99.6 21 PDB header:gene regulation
Chain: A: PDB Molecule:hth-type transcriptional regulator benm;
PDBTitle: benm effector binding domain with its effector benzoate
26d2esna2
not modelled 99.6 13 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
27c3ho7A_
not modelled 99.6 18 PDB header:transcription
Chain: A: PDB Molecule:oxyr;
PDBTitle: crystal structure of oxyr from porphyromonas gingivalis
28d1i6aa_
not modelled 99.6 20 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
29c3oxnD_
not modelled 99.6 16 PDB header:transcription regulator
Chain: D: PDB Molecule:putative transcriptional regulator, lysr family;
PDBTitle: the crystal structure of a putative transcriptional regulator from2 vibrio parahaemolyticus
30d1utha_
not modelled 99.6 13 Fold:Periplasmic binding protein-like II
Superfamily:Periplasmic binding protein-like II
Family:Phosphate binding protein-like
31c2uyeA_
not modelled 99.6 12 PDB header:transcription
Chain: A: PDB Molecule:regulatory protein;
PDBTitle: double mutant y110s,f111v dntr from burkholderia sp. strain2 dnt in complex with thiocyanate
32c3hhfB_
not modelled 99.5 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, lysr family;
PDBTitle: structure of crga regulatory domain, a lysr-type transcriptional2 regulator from neisseria meningitidis.
33c3n6uA_
not modelled 99.5 14 PDB header:transcription regulator
Chain: A: PDB Molecule:lysr type regulator of tsambcd;
PDBTitle: effector binding domain of tsar in complex with its inducer p-2 toluenesulfonate
34c3kosA_
not modelled 99.5 15 PDB header:transcription
Chain: A: PDB Molecule:hth-type transcriptional activator ampr;
PDBTitle: structure of the ampr effector binding domain from citrobacter2 freundii
35c3onmB_
not modelled 99.5 13 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator lrha;
PDBTitle: effector binding domain of lysr-type transcription factor rovm from y.2 pseudotuberculosis
36c3mz1D_
not modelled 99.4 11 PDB header:transcription regulator
Chain: D: PDB Molecule:putative transcriptional regulator;
PDBTitle: the crystal structure of a possible transcription regulator protein2 from sinorhizobium meliloti 1021
37c2qsxB_
not modelled 99.0 13 PDB header:transcription
Chain: B: PDB Molecule:putative transcriptional regulator, lysr family;
PDBTitle: crystal structure of putative transcriptional regulator lysr from2 vibrio parahaemolyticus
38c2x4hA_
not modelled 97.9 15 PDB header:transcription
Chain: A: PDB Molecule:hypothetical protein sso2273;
PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus
39c3ctaA_
not modelled 97.9 19 PDB header:transferase
Chain: A: PDB Molecule:riboflavin kinase;
PDBTitle: crystal structure of riboflavin kinase from thermoplasma2 acidophilum
40d2fxaa1
not modelled 97.8 15 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
41c3boqB_
not modelled 97.8 17 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcriptional regulator from2 silicibacter pomeroyi
42c2fxaB_
not modelled 97.6 15 PDB header:transcription
Chain: B: PDB Molecule:protease production regulatory protein hpr;
PDBTitle: structure of the protease production regulatory protein hpr from2 bacillus subtilis.
43c2fa5B_
not modelled 97.6 18 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator marr/emrr family;
PDBTitle: the crystal structure of an unliganded multiple antibiotic-2 resistance repressor (marr) from xanthomonas campestris
44d2fbha1
not modelled 97.5 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
45c3bpxB_
not modelled 97.5 14 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator;
PDBTitle: crystal structure of marr
46c3nrvC_
not modelled 97.5 14 PDB header:transcription regulator
Chain: C: PDB Molecule:putative transcriptional regulator (marr/emrr family);
PDBTitle: crystal structure of marr/emrr family transcriptional regulator from2 acinetobacter sp. adp1
47c2nnnB_
not modelled 97.4 12 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulator;
PDBTitle: crystal structure of probable transcriptional regulator from2 pseudomonas aeruginosa
48d1jgsa_
not modelled 97.4 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
49c3f3xA_
not modelled 97.4 24 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of the transcriptional regulator bldr2 from sulfolobus solfataricus
50c2nyxB_
not modelled 97.4 11 PDB header:transcription
Chain: B: PDB Molecule:probable transcriptional regulatory protein, rv1404;
PDBTitle: crystal structure of rv1404 from mycobacterium tuberculosis
51c3fm5D_
not modelled 97.4 16 PDB header:transcription regulator
Chain: D: PDB Molecule:transcriptional regulator;
PDBTitle: x-ray crystal structure of transcriptional regulator (marr family)2 from rhodococcus sp. rha1
52c2h09A_
not modelled 97.4 31 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator mntr;
PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli
53c2gxgA_
not modelled 97.4 14 PDB header:transcription
Chain: A: PDB Molecule:146aa long hypothetical transcriptional regulator;
PDBTitle: crystal structure of emrr homolog from hyperthermophilic archaea2 sulfolobus tokodaii strain7
54c3e6mD_
not modelled 97.3 24 PDB header:transcription regulator
Chain: D: PDB Molecule:marr family transcriptional regulator;
PDBTitle: the crystal structure of a marr family transcriptional2 regulator from silicibacter pomeroyi dss.
55c1f5tA_
not modelled 97.3 25 PDB header:transcription/dna
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: diphtheria tox repressor (c102d mutant) complexed with2 nickel and dtxr consensus binding sequence
56d1lj9a_
not modelled 97.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
57c2rdpA_
not modelled 97.3 15 PDB header:transcription
Chain: A: PDB Molecule:putative transcriptional regulator marr;
PDBTitle: the structure of a marr family protein from bacillus2 stearothermophilus
58d2bv6a1
not modelled 97.3 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
59d1p4xa1
not modelled 97.3 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
60d1lnwa_
not modelled 97.3 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
61d1s3ja_
not modelled 97.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
62c3hrmA_
not modelled 97.3 18 PDB header:transcription regulator
Chain: A: PDB Molecule:hth-type transcriptional regulator sarz;
PDBTitle: crystal structure of staphylococcus aureus protein sarz in sulfenic2 acid form
63c3cdhB_
not modelled 97.3 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of the marr family transcriptional regulator spo14532 from silicibacter pomeroyi dss-3
64c3nqoB_
not modelled 97.2 22 PDB header:transcription
Chain: B: PDB Molecule:marr-family transcriptional regulator;
PDBTitle: crystal structure of a marr family transcriptional regulator (cd1569)2 from clostridium difficile 630 at 2.20 a resolution
65d2etha1
not modelled 97.2 22 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
66c3cjnA_
not modelled 97.2 19 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of transcriptional regulator, marr family, from2 silicibacter pomeroyi
67c3hruA_
not modelled 97.2 23 PDB header:transcription
Chain: A: PDB Molecule:metalloregulator scar;
PDBTitle: crystal structure of scar with bound zn2+
68c1g3wA_
not modelled 97.2 29 PDB header:gene regulation
Chain: A: PDB Molecule:diphtheria toxin repressor;
PDBTitle: cd-cys102ser dtxr
69c2pexA_
not modelled 97.2 17 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator ohrr;
PDBTitle: structure of reduced c22s ohrr from xanthamonas campestris
70d2frha1
not modelled 97.2 13 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
71d2hr3a1
not modelled 97.1 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
72c3ecoB_
not modelled 97.1 18 PDB header:transcription
Chain: B: PDB Molecule:mepr;
PDBTitle: crystal structure of mepr, a transcription regulator of the2 staphylococcus aureus multidrug efflux pump mepa
73c1fx7C_
not modelled 97.1 26 PDB header:signaling protein
Chain: C: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of the iron-dependent regulator (ider)2 from mycobacterium tuberculosis
74c3bjaA_
not modelled 97.1 10 PDB header:transcription regulator
Chain: A: PDB Molecule:transcriptional regulator, marr family, putative;
PDBTitle: crystal structure of putative marr-like transcription regulator2 (np_978771.1) from bacillus cereus atcc 10987 at 2.38 a resolution
75c3g3zA_
not modelled 97.0 18 PDB header:transcription
Chain: A: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the structure of nmb1585, a marr family regulator from neisseria2 meningitidis
76d1ub9a_
not modelled 97.0 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
77c3k0lA_
not modelled 97.0 15 PDB header:transcription regulator
Chain: A: PDB Molecule:repressor protein;
PDBTitle: crystal structure of putative marr family transcriptional2 regulator from acinetobacter sp. adp
78d2fbka1
not modelled 97.0 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
79c3s2wB_
not modelled 97.0 18 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: the crystal structure of a marr transcriptional regulator from2 methanosarcina mazei go1
80d1p4xa2
not modelled 96.9 9 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
81d1hsja1
not modelled 96.9 12 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
82c3bj6B_
not modelled 96.9 13 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of marr family transcription regulator sp03579
83c2it0A_
not modelled 96.9 28 PDB header:transcription/dna
Chain: A: PDB Molecule:iron-dependent repressor ider;
PDBTitle: crystal structure of a two-domain ider-dna complex crystal2 form ii
84d3broa1
not modelled 96.8 8 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
85d3ctaa1
not modelled 96.7 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
86d2fbia1
not modelled 96.7 14 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
87c3oopA_
not modelled 96.7 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:lin2960 protein;
PDBTitle: the structure of a protein with unknown function from listeria innocua2 clip11262
88c3kp3B_
not modelled 96.7 16 PDB header:transcription regulator/antibiotic
Chain: B: PDB Molecule:transcriptional regulator tcar;
PDBTitle: staphylococcus epidermidis in complex with ampicillin
89c3onqB_
not modelled 96.7 12 PDB header:structural genomics, unknown function
Chain: B: PDB Molecule:regulator of polyketide synthase expression;
PDBTitle: crystal structure of regulator of polyketide synthase expression2 bad_0249 from bifidobacterium adolescentis
90d2a61a1
not modelled 96.6 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
91c2zkzC_
not modelled 96.6 13 PDB header:transcription
Chain: C: PDB Molecule:transcriptional repressor pagr;
PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis
92c2ev5B_
not modelled 96.6 18 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator mntr;
PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium
93c3deuB_
not modelled 96.5 16 PDB header:transcription regulator
Chain: B: PDB Molecule:transcriptional regulator slya;
PDBTitle: crystal structure of transcription regulatory protein slya2 from salmonella typhimurium in complex with salicylate3 ligands
94c1p4xA_
not modelled 96.5 16 PDB header:transcription
Chain: A: PDB Molecule:staphylococcal accessory regulator a homologue;
PDBTitle: crystal structure of sars protein from staphylococcus aureus
95d1z91a1
not modelled 96.5 18 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
96c2qwwB_
not modelled 96.4 14 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator, marr family;
PDBTitle: crystal structure of multiple antibiotic-resistance repressor (marr)2 (yp_013417.1) from listeria monocytogenes 4b f2365 at 2.07 a3 resolution
97c3jw4C_
not modelled 96.4 12 PDB header:transcription regulator
Chain: C: PDB Molecule:transcriptional regulator, marr/emrr family;
PDBTitle: the structure of a putative marr family transcriptional regulator from2 clostridium acetobutylicum
98c1r22B_
not modelled 96.4 21 PDB header:transcription repressor
Chain: B: PDB Molecule:transcriptional repressor smtb;
PDBTitle: crystal structure of the cyanobacterial metallothionein2 repressor smtb (c14s/c61s/c121s mutant) in the zn2alpha5-3 form
99d3deua1
not modelled 96.3 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:MarR-like transcriptional regulators
100d1biaa1
not modelled 96.2 19 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Biotin repressor-like
101d1r1ua_
not modelled 96.2 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
102c3cuoB_
not modelled 96.2 13 PDB header:transcription regulator
Chain: B: PDB Molecule:uncharacterized hth-type transcriptional regulator ygav;
PDBTitle: crystal structure of the predicted dna-binding transcriptional2 regulator from e. coli
103d2cfxa1
not modelled 96.2 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
104d1r1ta_
not modelled 96.1 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
105c2kkoB_
not modelled 96.0 17 PDB header:dna binding protein
Chain: B: PDB Molecule:possible transcriptional regulatory protein
PDBTitle: solution nmr structure of the homodimeric winged helix-turn-2 helix dna-binding domain (fragment 1-100) mb0332 from3 mycobacterium bovis, a possible arsr-family transcriptional4 regulator. northeast structural genomics consortium target5 mbr242e.
106c2jscB_
not modelled 95.9 20 PDB header:transcription
Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050;
PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis
107d1u2wa1
not modelled 95.8 20 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:ArsR-like transcriptional regulators
108c2ia0A_
not modelled 95.7 14 PDB header:structural genomics, unknown function
Chain: A: PDB Molecule:putative hth-type transcriptional regulator pf0864;
PDBTitle: transcriptional regulatory protein pf0864 from pyrococcus furiosus a2 member of the asnc family (pf0864)
109c2dbbA_
not modelled 95.7 19 PDB header:transcriptional regulator
Chain: A: PDB Molecule:putative hth-type transcriptional regulator ph0061;
PDBTitle: crystal structure of ph0061
110c3jthA_
not modelled 95.7 23 PDB header:transcription
Chain: A: PDB Molecule:transcription activator hlyu;
PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6
111d2cg4a1
not modelled 95.6 11 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:Lrp/AsnC-like transcriptional regulator N-terminal domain
112c3bddD_
not modelled 95.6 21 PDB header:transcription
Chain: D: PDB Molecule:regulatory protein marr;
PDBTitle: crystal structure of a putative multiple antibiotic-resistance2 repressor (ssu05_1136) from streptococcus suis 89/1591 at 2.20 a3 resolution
113c2pijB_
not modelled 95.5 23 PDB header:transcription
Chain: B: PDB Molecule:prophage pfl 6 cro;
PDBTitle: structure of the cro protein from prophage pfl 6 in pseudomonas2 fluorescens pf-5
114c3f6vA_
not modelled 95.5 18 PDB header:transcription regulator
Chain: A: PDB Molecule:possible transcriptional regulator, arsr family
PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance
115d1a04a1
not modelled 95.4 16 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:C-terminal effector domain of the bipartite response regulators
Family:GerE-like (LuxR/UhpA family of transcriptional regulators)
116c2vbzA_
not modelled 95.4 17 PDB header:dna-binding protein
Chain: A: PDB Molecule:transcriptional regulatory protein;
PDBTitle: feast or famine regulatory protein (rv3291c)from m.2 tuberculosis complexed with l-tryptophan
117c2ewnA_
not modelled 95.4 21 PDB header:ligase, transcription
Chain: A: PDB Molecule:bira bifunctional protein;
PDBTitle: ecoli biotin repressor with co-repressor analog
118d1d1la_
not modelled 95.4 16 Fold:lambda repressor-like DNA-binding domains
Superfamily:lambda repressor-like DNA-binding domains
Family:Phage repressors
119d2f2ea1
not modelled 95.4 21 Fold:DNA/RNA-binding 3-helical bundle
Superfamily:"Winged helix" DNA-binding domain
Family:HxlR-like
120c2cg4B_
not modelled 95.3 11 PDB header:transcription
Chain: B: PDB Molecule:regulatory protein asnc;
PDBTitle: structure of e.coli asnc

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