Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	N	V	T	V	T	F	T	I	T	E	F	C	L	H	T	G	I	S	E	E	E	L	N	E	I	V	G	L	G	V	V	E	P	R	E	I	Q	E	T	T	W	V	F	D	D	H	A	A	I	V	V	Q	R	A	V	R	L	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?		?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.
Sequence		H	E	L	A	L	D	W	P	G	I	A	V	A	L	T	L	M	D	D	I	A	H	L	K	Q	E	N	R	L	L	R	Q	R	L	S	R	F	V	A	H	P
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

PDB 3d6z chain A Region: 8 - 99 Aligned: 91 Modelled: 92 Confidence: 99.8% Identity: 16% PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine Phyre2 PDB 1r8d chain A Region: 6 - 99 Aligned: 94 Modelled: 94 Confidence: 99.8% Identity: 14% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 2zhh chain A Region: 8 - 99 Aligned: 91 Modelled: 92 Confidence: 99.8% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr Phyre2 PDB 2vz4 chain A Region: 7 - 99 Aligned: 92 Modelled: 93 Confidence: 99.7% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional activator tipa; PDBTitle: the n-terminal domain of merr-like protein tipal bound to2 promoter dna Phyre2 PDB 3gp4 chain B Region: 7 - 99 Aligned: 92 Modelled: 93 Confidence: 99.7% Identity: 16% PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of putative merr family transcriptional regulator2 from listeria monocytogenes Phyre2 PDB 3hh0 chain C Region: 6 - 99 Aligned: 93 Modelled: 94 Confidence: 99.7% Identity: 13% PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal strucure of a transcriptional regulator, merr family2 from bacillus cereus Phyre2 PDB 1q06 chain A Region: 8 - 99 Aligned: 92 Modelled: 92 Confidence: 99.7% Identity: 12% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 1r8e chain A domain 1 Region: 8 - 101 Aligned: 93 Modelled: 94 Confidence: 99.7% Identity: 19% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 3qao chain A Region: 5 - 99 Aligned: 95 Modelled: 95 Confidence: 99.7% Identity: 19% PDB header:transcription regulator Chain: A: PDB Molecule:merr-like transcriptional regulator; PDBTitle: the crystal structure of the n-terminal domain of a merr-like2 transcriptional regulator from listeria monocytogenes egd-e Phyre2 PDB 3gpv chain A Region: 8 - 99 Aligned: 92 Modelled: 92 Confidence: 99.7% Identity: 11% PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of a transcriptional regulator, merr2 family from bacillus thuringiensis Phyre2 PDB 2jml chain A Region: 4 - 75 Aligned: 72 Modelled: 72 Confidence: 99.5% Identity: 22% PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor Phyre2 PDB 2dg6 chain A Region: 10 - 79 Aligned: 61 Modelled: 70 Confidence: 99.4% Identity: 15% PDB header:gene regulation Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of the putative transcriptional regulator sco55502 from streptomyces coelicolor a3(2) Phyre2 PDB 1q08 chain A Region: 48 - 99 Aligned: 51 Modelled: 52 Confidence: 97.2% Identity: 10% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 2ev2 chain B Region: 7 - 74 Aligned: 65 Modelled: 68 Confidence: 94.6% Identity: 18% PDB header:lyase Chain: B: PDB Molecule:hypothetical protein rv1264/mt1302; PDBTitle: structure of rv1264n, the regulatory domain of the mycobacterial2 adenylyl cylcase rv1264, at ph 8.5 Phyre2 PDB 1fx7 chain C Region: 8 - 101 Aligned: 87 Modelled: 94 Confidence: 94.6% Identity: 10% 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 Phyre2 PDB 2kfs chain A Region: 1 - 79 Aligned: 78 Modelled: 79 Confidence: 94.2% Identity: 13% PDB header:dna-binding protein Chain: A: PDB Molecule:conserved hypothetical regulatory protein; PDBTitle: nmr structure of rv2175c Phyre2 PDB 1z4h chain A Region: 8 - 52 Aligned: 45 Modelled: 45 Confidence: 94.0% Identity: 7% 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 Phyre2 PDB 1g3w chain A Region: 8 - 101 Aligned: 87 Modelled: 94 Confidence: 93.2% Identity: 9% PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr Phyre2 PDB 1j9i chain A Region: 6 - 52 Aligned: 47 Modelled: 47 Confidence: 93.0% Identity: 15% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: Terminase gpNU1 subunit domain Phyre2 PDB 2it0 chain A Region: 8 - 101 Aligned: 87 Modelled: 94 Confidence: 91.5% Identity: 10% 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 Phyre2 1 c3d6zA_ 2 d1r8da_ 3 c2zhhA_ 4 c2vz4A_ 5 c3gp4B_ 6 c3hh0C_ 7 d1q06a_ 8 d1r8ea1 9 c3qaoA_ 10 c3gpvA_ 11 c2jmlA_ 12 c2dg6A_ 13 d1q08a_ 14 c2ev2B_ 15 c1fx7C_ 16 c2kfsA_ 17 c1z4hA_ 18 c1g3wA_ 19 d1j9ia_ 20 c2it0A_ 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

Detailed template information

# Template Alignment Coverage 3D Model Confidence % i.d. Template Information

1 c3d6zA_ 99.8 16 PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine 2 d1r8da_ 99.8 14 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 3 c2zhhA_ 99.8 14 PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr 4 c2vz4A_ 99.7 14 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional activator tipa; PDBTitle: the n-terminal domain of merr-like protein tipal bound to2 promoter dna 5 c3gp4B_ 99.7 16 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of putative merr family transcriptional regulator2 from listeria monocytogenes 6 c3hh0C_ 99.7 13 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal strucure of a transcriptional regulator, merr family2 from bacillus cereus 7 d1q06a_ 99.7 12 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 8 d1r8ea1 99.7 19 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 9 c3qaoA_ 99.7 19 PDB header:transcription regulator Chain: A: PDB Molecule:merr-like transcriptional regulator; PDBTitle: the crystal structure of the n-terminal domain of a merr-like2 transcriptional regulator from listeria monocytogenes egd-e 10 c3gpvA_ 99.7 11 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of a transcriptional regulator, merr2 family from bacillus thuringiensis 11 c2jmlA_ 99.5 22 PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor 12 c2dg6A_ 99.4 15 PDB header:gene regulation Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of the putative transcriptional regulator sco55502 from streptomyces coelicolor a3(2) 13 d1q08a_ 97.2 10 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 14 c2ev2B_ 94.6 18 PDB header:lyase Chain: B: PDB Molecule:hypothetical protein rv1264/mt1302; PDBTitle: structure of rv1264n, the regulatory domain of the mycobacterial2 adenylyl cylcase rv1264, at ph 8.5 15 c1fx7C_ 94.6 10 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 16 c2kfsA_ 94.2 13 PDB header:dna-binding protein Chain: A: PDB Molecule:conserved hypothetical regulatory protein; PDBTitle: nmr structure of rv2175c 17 c1z4hA_ 94.0 7 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 18 c1g3wA_ 93.2 9 PDB header:gene regulation Chain: A: PDB Molecule:diphtheria toxin repressor; PDBTitle: cd-cys102ser dtxr 19 d1j9ia_ 93.0 15 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Terminase gpNU1 subunit domain 20 c2it0A_ 91.5 10 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 21 c3ezfA_ not modelled 91.1 13 PDB header:biosynthetic protein Chain: A: PDB Molecule:para; PDBTitle: partition protein 22 c2wusR_ not modelled 90.9 23 PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz 23 c3fymA_ not modelled 90.5 21 PDB header:dna binding protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: the 1a structure of ymfm, a putative dna-binding membrane2 protein from staphylococcus aureus 24 c2x4hA_ not modelled 90.2 12 PDB header:transcription Chain: A: PDB Molecule:hypothetical protein sso2273; PDBTitle: crystal structure of the hypothetical protein sso2273 from2 sulfolobus solfataricus 25 c2h09A_ not modelled 90.2 13 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 26 c3by6C_ not modelled 89.3 11 PDB header:transcription regulator Chain: C: PDB Molecule:predicted transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator from oenococcus oeni 27 c3cuoB_ not modelled 88.6 11 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 28 c3hruA_ not modelled 88.5 16 PDB header:transcription Chain: A: PDB Molecule:metalloregulator scar; PDBTitle: crystal structure of scar with bound zn2+ 29 c3jthA_ not modelled 86.2 24 PDB header:transcription Chain: A: PDB Molecule:transcription activator hlyu; PDBTitle: crystal structure of a transcriptional regulator hlyu from2 vibrio vulnificus cmcp6 30 c2du9A_ not modelled 85.8 14 PDB header:transcription Chain: A: PDB Molecule:predicted transcriptional regulators; PDBTitle: crystal structure of the transcriptional factor from c.glutamicum 31 c3f6vA_ not modelled 85.0 17 PDB header:transcription regulator Chain: A: PDB Molecule:possible transcriptional regulator, arsr family PDBTitle: crystal structure of possible transcriptional regulator for2 arsenical resistance 32 d1ku9a_ not modelled 84.9 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:DNA-binding protein Mj223 33 c2oqgA_ not modelled 84.3 12 PDB header:transcription Chain: A: PDB Molecule:possible transcriptional regulator, arsr family protein; PDBTitle: arsr-like transcriptional regulator from rhodococcus sp. rha1 34 c2ev5B_ not modelled 83.9 3 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator mntr; PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium 35 d1pm6a_ not modelled 82.8 14 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 36 c3b7hA_ not modelled 82.7 17 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 37 d2d1ha1 not modelled 82.5 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 38 d2ofya1 not modelled 82.1 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 39 d1r1ua_ not modelled 81.1 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 40 c3clcC_ not modelled 81.1 9 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 41 c2zkzC_ not modelled 80.5 10 PDB header:transcription Chain: C: PDB Molecule:transcriptional repressor pagr; PDBTitle: crystal structure of the transcriptional repressor pagr of bacillus2 anthracis 42 d1stza1 not modelled 79.7 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Heat-inducible transcription repressor HrcA, N-terminal domain 43 d2hsga1 not modelled 79.2 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 44 d1utxa_ not modelled 78.8 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 45 d1mkma1 not modelled 78.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 46 c3neuA_ not modelled 77.8 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin1836 protein; PDBTitle: the crystal structure of a functionally-unknown protein lin1836 from2 listeria innocua clip11262 47 d1y7ya1 not modelled 77.5 7 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 48 c2o3fC_ not modelled 77.4 20 PDB header:transcription Chain: C: PDB Molecule:putative hth-type transcriptional regulator ybbh; PDBTitle: structural genomics, the crystal structure of the n-2 terminal domain of the putative transcriptional regulator3 ybbh from bacillus subtilis subsp. subtilis str. 168. 49 d1qpza1 not modelled 77.3 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 50 c2ppxA_ not modelled 77.3 23 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 51 d2ppxa1 not modelled 77.3 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 52 d2o3fa1 not modelled 77.1 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:RpiR-like 53 c1b0nA_ not modelled 76.5 15 PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex 54 d2jn6a1 not modelled 76.5 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 55 c3eqxB_ not modelled 76.4 13 PDB header:dna binding protein Chain: B: PDB Molecule:fic domain containing transcriptional regulator; PDBTitle: crystal structure of a fic family protein (so_4266) from shewanella2 oneidensis at 1.6 a resolution 56 d1r1ta_ not modelled 75.8 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 57 d1j5ya1 not modelled 75.8 5 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 58 c2kkoB_ not modelled 75.0 24 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. 59 d1efaa1 not modelled 74.4 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 60 c1r22B_ not modelled 73.8 14 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 61 d2b5aa1 not modelled 73.7 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 62 c2ebyA_ not modelled 73.3 7 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 63 d1jt6a1 not modelled 73.2 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 64 d2p4wa1 not modelled 72.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PF1790-like 65 c3bs3A_ not modelled 71.8 18 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 66 d1xd7a_ not modelled 71.7 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator Rrf2 67 c1u78A_ not modelled 70.6 8 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 68 d1biaa1 not modelled 70.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 69 c3kxaD_ not modelled 70.2 22 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae 70 c3iwfA_ not modelled 70.0 12 PDB header:transcription regulator Chain: A: PDB Molecule:transcription regulator rpir family; PDBTitle: the crystal structure of the n-terminal domain of a rpir2 transcriptional regulator from staphylococcus epidermidis to 1.4a 71 c3fmyA_ not modelled 69.9 14 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) 72 d1fp2a1 not modelled 69.9 8 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Plant O-methyltransferase, N-terminal domain 73 c3f6oB_ not modelled 69.6 13 PDB header:transcription regulator Chain: B: PDB Molecule:probable transcriptional regulator, arsr family PDBTitle: crystal structure of arsr family transcriptional regulator,2 rha00566 74 c2kpjA_ not modelled 69.2 23 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 75 d1uxca_ not modelled 69.1 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 76 c2hs5A_ not modelled 68.6 13 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcriptional regulator gntr; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator gntr from rhodococcus sp. rha1 77 d2o7ta1 not modelled 68.4 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 78 d1t56a1 not modelled 68.1 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 79 c2y75F_ not modelled 68.0 18 PDB header:transcription Chain: F: PDB Molecule:hth-type transcriptional regulator cymr; PDBTitle: the structure of cymr (yrzc) the global cysteine regulator2 of b. subtilis 80 c3c7jA_ not modelled 68.0 18 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: crystal structure of transcriptional regulator (gntr family member)2 from pseudomonas syringae pv. tomato str. dc3000 81 d2fq4a1 not modelled 67.9 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 82 c2bnoA_ not modelled 67.9 9 PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis. 83 c3k69A_ not modelled 67.6 11 PDB header:transcription Chain: A: PDB Molecule:putative transcription regulator; PDBTitle: crystal structure of a putative transcriptional regulator (lp_0360)2 from lactobacillus plantarum at 1.95 a resolution 84 d1v7ba1 not modelled 67.5 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 85 c3pqkD_ not modelled 67.3 20 PDB header:transcription Chain: D: PDB Molecule:biofilm growth-associated repressor; PDBTitle: crystal structure of the transcriptional repressor bigr from xylella2 fastidiosa 86 c3izbV_ not modelled 67.3 11 PDB header:ribosome Chain: V: PDB Molecule:40s ribosomal protein rps25 (s25e); PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 87 d2fbqa1 not modelled 66.8 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 88 c2jscB_ not modelled 66.7 19 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator rv1994c/mt2050; PDBTitle: nmr structure of the cadmium metal-sensor cmtr from mycobacterium2 tuberculosis 89 d2g3ba1 not modelled 66.7 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 90 c2di3A_ not modelled 66.7 18 PDB header:transcription Chain: A: PDB Molecule:bacterial regulatory proteins, gntr family; PDBTitle: crystal structure of the transcriptional factor cgl29152 from corynebacterium glutamicum 91 c3t76A_ not modelled 66.5 14 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 92 c2dg7A_ not modelled 66.4 15 PDB header:gene regulation Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of the putative transcriptional regulator sco03372 from streptomyces coelicolor a3(2) 93 c2xzm8_ not modelled 66.4 13 PDB header:ribosome Chain: 8: PDB Molecule:rps25e,; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 94 d1sq8a_ not modelled 66.3 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 95 c3o60A_ not modelled 66.2 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin0861 protein; PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a 96 c3f52A_ not modelled 66.2 23 PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum 97 d1r69a_ not modelled 66.1 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 98 d1uxda_ not modelled 66.1 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 99 d1ui5a1 not modelled 65.9 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 100 c3op9A_ not modelled 65.7 0 PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua 101 c2fq4A_ not modelled 65.7 10 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: the crystal structure of the transcriptional regulator (tetr family)2 from bacillus cereus 102 d3c07a1 not modelled 65.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 103 d1adra_ not modelled 65.4 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 104 c2oerA_ not modelled 65.3 25 PDB header:transcription Chain: A: PDB Molecule:probable transcriptional regulator; PDBTitle: probable transcriptional regulator from pseudomonas2 aeruginosa 105 c3omtA_ not modelled 65.3 5 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. 106 d2g7sa1 not modelled 65.2 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 107 c2nx4A_ not modelled 65.0 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:transcriptional regulator, tetr family protein; PDBTitle: the crystal structure of athe putative tetr-family transcriptional2 regulator rha06780 from rhodococcus sp. rha1. 108 d2vkva1 not modelled 65.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 109 c3f1bA_ not modelled 64.8 15 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. 110 d1sfxa_ not modelled 64.8 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 111 d2i10a1 not modelled 64.8 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 112 c1vi0B_ not modelled 64.7 5 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator 113 c2l8nA_ not modelled 64.5 19 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional repressor cytr; PDBTitle: nmr structure of the cytidine repressor dna binding domain in presence2 of operator half-site dna 114 d2gena1 not modelled 64.5 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 115 d1u2wa1 not modelled 64.2 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 116 c3lwfD_ not modelled 64.0 16 PDB header:transcription regulator Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator (np_470886.1)2 from listeria innocua at 2.06 a resolution 117 d2bjca1 not modelled 63.9 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 118 d1lcda_ not modelled 63.9 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 119 c1y9qA_ not modelled 63.8 23 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, hth_3 family; PDBTitle: crystal structure of hth_3 family transcriptional regulator2 from vibrio cholerae 120 d1b0na2 not modelled 63.7 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-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

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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