Secondary structure and disorder prediction

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10

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20

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30

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40

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50

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60

Sequence

M

Q

H

E

L

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P

D

S

L

V

D

L

K

F

I

M

A

D

T

G

F

G

K

T

F

I

Y

D

R

I

K

S

G

D

L

P

K

A

K

V

I

H

G

R

A

R

W

L

Y

R

D

H

C

E

F

K

N

K

L

Secondary structure

SS confidence

Disorder

?

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?

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?

?

?

?

?

?

?

?

?

?

?

?

Disorder confidence

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Sequence

L

S

R

A

N

G

Secondary structure

SS confidence

Disorder

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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 1z4h chain A Region: 1 - 66 Aligned: 66 Modelled: 66 Confidence: 100.0% Identity: 100% 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 1y6u chain A Region: 10 - 59 Aligned: 50 Modelled: 50 Confidence: 97.7% Identity: 4% PDB header:dna binding protein Chain: A: PDB Molecule:excisionase from transposon tn916; PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases Phyre2 PDB 3qao chain A Region: 8 - 62 Aligned: 55 Modelled: 55 Confidence: 96.8% Identity: 16% 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 2zhh chain A Region: 9 - 66 Aligned: 58 Modelled: 58 Confidence: 96.8% Identity: 9% PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr Phyre2 PDB 2vz4 chain A Region: 12 - 66 Aligned: 55 Modelled: 55 Confidence: 96.4% Identity: 18% 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 1q06 chain A Region: 11 - 55 Aligned: 45 Modelled: 45 Confidence: 96.2% Identity: 13% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 1r8d chain A Region: 12 - 66 Aligned: 55 Modelled: 55 Confidence: 96.2% Identity: 13% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 3gp4 chain B Region: 11 - 66 Aligned: 56 Modelled: 56 Confidence: 96.0% 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 3gpv chain A Region: 10 - 66 Aligned: 57 Modelled: 57 Confidence: 95.6% Identity: 12% 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 3hh0 chain C Region: 12 - 66 Aligned: 55 Modelled: 55 Confidence: 95.0% Identity: 11% 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 1r8e chain A domain 1 Region: 8 - 55 Aligned: 48 Modelled: 48 Confidence: 94.9% Identity: 8% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: DNA-binding N-terminal domain of transcription activators Phyre2 PDB 2jml chain A Region: 11 - 55 Aligned: 45 Modelled: 45 Confidence: 94.0% Identity: 9% 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 2kfs chain A Region: 8 - 48 Aligned: 40 Modelled: 41 Confidence: 93.9% Identity: 18% PDB header:dna-binding protein Chain: A: PDB Molecule:conserved hypothetical regulatory protein; PDBTitle: nmr structure of rv2175c Phyre2 PDB 1j9i chain A Region: 11 - 65 Aligned: 54 Modelled: 55 Confidence: 92.9% Identity: 11% Fold: Putative DNA-binding domain Superfamily: Putative DNA-binding domain Family: Terminase gpNU1 subunit domain Phyre2 PDB 1umq chain A Region: 12 - 33 Aligned: 22 Modelled: 22 Confidence: 92.5% Identity: 0% 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 Phyre2 PDB 1umq chain A Region: 12 - 33 Aligned: 22 Modelled: 22 Confidence: 92.5% Identity: 0% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1fip chain A Region: 12 - 33 Aligned: 22 Modelled: 22 Confidence: 91.2% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1bia chain A domain 1 Region: 5 - 33 Aligned: 29 Modelled: 29 Confidence: 91.1% Identity: 14% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Biotin repressor-like Phyre2 PDB 1etx chain A Region: 12 - 33 Aligned: 22 Modelled: 22 Confidence: 90.5% Identity: 9% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 PDB 1g2h chain A Region: 12 - 33 Aligned: 22 Modelled: 22 Confidence: 90.4% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: FIS-like Phyre2 1 c1z4hA_ 2 c1y6uA_ 3 c3qaoA_ 4 c2zhhA_ 5 c2vz4A_ 6 d1q06a_ 7 d1r8da_ 8 c3gp4B_ 9 c3gpvA_ 10 c3hh0C_ 11 d1r8ea1 12 c2jmlA_ 13 c2kfsA_ 14 d1j9ia_ 15 c1umqA_ 16 d1umqa_ 17 d1fipa_ 18 d1biaa1 19 d1etxa_ 20 d1g2ha_ 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

Detailed template information

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

1 c1z4hA_ 100.0 100 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 2 c1y6uA_ 97.7 4 PDB header:dna binding protein Chain: A: PDB Molecule:excisionase from transposon tn916; PDBTitle: the structure of the excisionase (xis) protein from2 conjugative transposon tn916 provides insights into the3 regulation of heterobivalent tyrosine recombinases 3 c3qaoA_ 96.8 16 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 4 c2zhhA_ 96.8 9 PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr 5 c2vz4A_ 96.4 18 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 6 d1q06a_ 96.2 13 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 7 d1r8da_ 96.2 13 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 8 c3gp4B_ 96.0 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 9 c3gpvA_ 95.6 12 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of a transcriptional regulator, merr2 family from bacillus thuringiensis 10 c3hh0C_ 95.0 11 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal strucure of a transcriptional regulator, merr family2 from bacillus cereus 11 d1r8ea1 94.9 8 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 12 c2jmlA_ 94.0 9 PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor 13 c2kfsA_ 93.9 18 PDB header:dna-binding protein Chain: A: PDB Molecule:conserved hypothetical regulatory protein; PDBTitle: nmr structure of rv2175c 14 d1j9ia_ 92.9 11 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Terminase gpNU1 subunit domain 15 c1umqA_ 92.5 0 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 16 d1umqa_ 92.5 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 17 d1fipa_ 91.2 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 18 d1biaa1 91.1 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 19 d1etxa_ 90.5 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 20 d1g2ha_ 90.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 21 d1ntca_ not modelled 89.6 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 22 d2icta1 not modelled 89.3 6 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 23 d2ao9a1 not modelled 89.1 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Nanomeric phage protein-like 24 d1j5ya1 not modelled 88.5 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 25 d1etob_ not modelled 88.4 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 26 c2kpjA_ not modelled 88.3 13 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 27 c3clcC_ not modelled 88.1 11 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 28 c3e7lD_ not modelled 88.0 36 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 29 c3omtA_ not modelled 87.6 11 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. 30 d1y9qa1 not modelled 87.3 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain 31 c3bs3A_ not modelled 87.2 11 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 32 c2ebyA_ not modelled 86.9 7 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 33 d2jn6a1 not modelled 86.8 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 34 c1u78A_ not modelled 86.8 13 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 35 c1hlvA_ not modelled 86.0 7 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 36 d1sq8a_ not modelled 86.0 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 37 c2dg6A_ not modelled 85.9 19 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) 38 c3t76A_ not modelled 85.4 11 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 39 d1adra_ not modelled 85.3 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 40 d2ppxa1 not modelled 85.3 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 41 c2ppxA_ not modelled 85.3 10 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 42 c2xcjB_ not modelled 85.0 11 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 43 d1rh6a_ not modelled 84.8 4 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 44 d1pm6a_ not modelled 84.7 8 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Excisionase-like 45 c1b0nA_ not modelled 84.6 10 PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex 46 c2gm4B_ not modelled 84.2 13 PDB header:recombination, dna Chain: B: PDB Molecule:transposon gamma-delta resolvase; PDBTitle: an activated, tetrameric gamma-delta resolvase: hin chimaera bound to2 cleaved dna 47 c3op9A_ not modelled 84.2 9 PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua 48 d1utxa_ not modelled 84.0 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 49 d1y7ya1 not modelled 83.8 4 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 50 d1mkma1 not modelled 83.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Transcriptional regulator IclR, N-terminal domain 51 d1r69a_ not modelled 83.3 7 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 52 c6paxA_ not modelled 83.3 6 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 53 c1y9qA_ not modelled 83.2 19 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 54 c3cecA_ not modelled 83.1 10 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 55 c3b7hA_ not modelled 82.7 7 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 56 c2g7uB_ not modelled 82.6 9 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: 2.3 a structure of putative catechol degradative operon regulator from2 rhodococcus sp. rha1 57 d1b0na2 not modelled 82.1 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 58 c3trbA_ not modelled 81.9 3 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 59 d2fq4a1 not modelled 81.9 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 60 d2croa_ not modelled 81.6 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 61 c3mlfC_ not modelled 81.2 14 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. 62 c3bd1B_ not modelled 81.0 19 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 63 c3hefB_ not modelled 80.7 13 PDB header:viral protein Chain: B: PDB Molecule:gene 1 protein; PDBTitle: crystal structure of the bacteriophage sf6 terminase small2 subunit 64 c2rn7A_ not modelled 80.4 9 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 65 c2ao9H_ not modelled 80.4 16 PDB header:structural genomics, unknown function Chain: H: PDB Molecule:phage protein; PDBTitle: structural genomics, the crystal structure of a phage protein2 (phbc6a51) from bacillus cereus atcc 14579 66 d1jt6a1 not modelled 80.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 67 d2fbqa1 not modelled 80.2 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 68 c3fmyA_ not modelled 80.1 13 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) 69 c3d6zA_ not modelled 79.8 7 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 70 d1x57a1 not modelled 79.4 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like 71 c3ivpD_ not modelled 79.4 11 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. 72 c1mkmA_ not modelled 79.4 14 PDB header:transcription Chain: A: PDB Molecule:iclr transcriptional regulator; PDBTitle: crystal structure of the thermotoga maritima iclr 73 c3f52A_ not modelled 79.2 7 PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum 74 d1t56a1 not modelled 79.1 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 75 c2r0qF_ not modelled 79.0 9 PDB header:recombination/dna Chain: F: PDB Molecule:putative transposon tn552 dna-invertase bin3; PDBTitle: crystal structure of a serine recombinase- dna regulatory2 complex 76 c3f1bA_ not modelled 78.7 20 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. 77 c2xroE_ not modelled 78.5 18 PDB header:dna-binding protein/dna Chain: E: PDB Molecule:hth-type transcriptional regulator ttgv; PDBTitle: crystal structure of ttgv in complex with its dna operator 78 d1vi0a1 not modelled 78.4 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 79 d2r1jl1 not modelled 78.4 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 80 c2ef8A_ not modelled 78.4 7 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is 81 d1llib_ not modelled 77.9 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 82 c3r4kD_ not modelled 77.7 18 PDB header:dna binding protein Chain: D: PDB Molecule:transcriptional regulator, iclr family; PDBTitle: crystal structure of a putative iclr transcriptional regulator2 (tm1040_3717) from silicibacter sp. tm1040 at 2.46 a resolution 83 c2nx4A_ not modelled 77.7 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. 84 d2vkva1 not modelled 77.6 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 85 d2gena1 not modelled 77.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 86 c3e7qB_ not modelled 77.3 20 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: the crystal structure of the putative transcriptional regulator from2 pseudomonas aeruginosa pao1 87 c2ia2D_ not modelled 77.3 9 PDB header:transcription Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: the crystal structure of a putative transcriptional regulator rha061952 from rhodococcus sp. rha1 88 d1ui5a1 not modelled 77.1 30 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 89 c2gfnA_ not modelled 76.8 10 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional regulator pksa related protein; PDBTitle: crystal structure of hth-type transcriptional regulator pksa related2 protein from rhodococcus sp. rha1 90 c3eusB_ not modelled 76.7 4 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi 91 c3ppbB_ not modelled 76.6 10 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 92 c2fjrB_ not modelled 76.5 7 PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 93 d2o7ta1 not modelled 76.4 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 94 c2dg7A_ not modelled 76.3 12 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) 95 c2o0yB_ not modelled 76.2 23 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of putative transcriptional regulator rha1_ro069532 (iclr-family) from rhodococcus sp. 96 d2g3ba1 not modelled 76.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 97 c1vi0B_ not modelled 76.1 20 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator 98 c3o60A_ not modelled 76.1 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin0861 protein; PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a 99 c3mkyP_ not modelled 76.0 17 PDB header:dna binding protein/dna Chain: P: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form 100 c3pasA_ not modelled 76.0 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 101 c3dcfB_ not modelled 76.0 35 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator of the tetr/acrr PDBTitle: crystal structure of transcriptional regulator of the2 tetr/acrr family (yp_290855.1) from thermobifida fusca yx-3 er1 at 2.50 a resolution 102 d2ofya1 not modelled 75.8 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 103 c3b6aC_ not modelled 75.5 10 PDB header:transcription Chain: C: PDB Molecule:actr protein; PDBTitle: crystal structure of the streptomyces coelicolor tetr2 family protein actr in complex with actinorhodin 104 c3iuvA_ not modelled 75.4 5 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized tetr family protein; PDBTitle: the structure of a member of tetr family (sco1917) from2 streptomyces coelicolor a3 105 d1i1ga1 not modelled 75.4 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 106 d1rioa_ not modelled 75.3 7 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 107 c3iwfA_ not modelled 75.2 17 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 108 c2guhA_ not modelled 75.2 30 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 109 c1jumB_ not modelled 75.0 15 PDB header:transcription Chain: B: PDB Molecule:hypothetical transcriptional regulator in qaca PDBTitle: crystal structure of the multidrug binding transcriptional2 repressor qacr bound to the natural drug berberine 110 c2f07A_ not modelled 75.0 15 PDB header:transcription Chain: A: PDB Molecule:yvdt; PDBTitle: crystal structure of yvdt from bacillus subtilis 111 c2i10A_ not modelled 74.8 10 PDB header:transcription Chain: A: PDB Molecule:putative tetr transcriptional regulator; PDBTitle: putative tetr transcriptional regulator from rhodococcus sp. rha1 112 c2zb9A_ not modelled 74.8 20 PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: crystal structure of tetr family transcription regulator2 sco0332 113 d2id3a1 not modelled 74.8 45 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 114 d1lmb3_ not modelled 74.7 7 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 115 c3ezfA_ not modelled 74.6 7 PDB header:biosynthetic protein Chain: A: PDB Molecule:para; PDBTitle: partition protein 116 d1uxca_ not modelled 74.6 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 117 c3cjdB_ not modelled 74.6 10 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: crystal structure of putative tetr transcriptional regulator2 (yp_510936.1) from jannaschia sp. ccs1 at 1.79 a resolution 118 d2d6ya1 not modelled 74.6 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 119 d1pb6a1 not modelled 74.5 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 120 d1vz0a1 not modelled 74.3 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding 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