Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	K	T	D	A	L	L	Y	F	G	S	K	T	K	L	A	Q	A	A	G	I	R	L	A	S	L	Y	S	W	K	G	D	L	V	P	E	G	R	A	M	R	L	Q	E	A	S	G	G	E	L	Q	Y	D	P	K	V	Y	D	E
Secondary structure
SS confidence
Disorder		?	?																																																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.
Sequence		Y	R	K	T	K	R	A	G	R	L	N	N	E	N	H	S
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 1rzs chain A Region: 1 - 62 Aligned: 61 Modelled: 62 Confidence: 99.9% Identity: 33% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 3bd1 chain B Region: 4 - 58 Aligned: 55 Modelled: 55 Confidence: 99.7% Identity: 25% 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 Phyre2 PDB 2hin chain A Region: 1 - 59 Aligned: 59 Modelled: 59 Confidence: 99.2% Identity: 20% PDB header:transcription Chain: A: PDB Molecule:repressor protein; PDBTitle: structure of n15 cro at 1.05 a: an ortholog of lambda cro2 with a completely different but equally effective3 dimerization mechanism Phyre2 PDB 2fjr chain B Region: 10 - 48 Aligned: 39 Modelled: 39 Confidence: 97.5% Identity: 23% PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 Phyre2 PDB 2jvl chain A Region: 12 - 52 Aligned: 41 Modelled: 41 Confidence: 95.9% Identity: 17% PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei Phyre2 PDB 2eby chain A Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 95.5% Identity: 16% PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli Phyre2 PDB 3omt chain A Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 95.4% Identity: 16% 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. Phyre2 PDB 3trb chain A Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 95.4% Identity: 24% 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 Phyre2 PDB 2kpj chain A Region: 12 - 43 Aligned: 32 Modelled: 32 Confidence: 95.3% Identity: 19% 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 Phyre2 PDB 2ict chain A domain 1 Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 95.0% Identity: 22% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 2ppx chain A Region: 12 - 46 Aligned: 35 Modelled: 35 Confidence: 94.8% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens Phyre2 PDB 2ppx chain A domain 1 Region: 12 - 46 Aligned: 35 Modelled: 35 Confidence: 94.8% Identity: 20% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 3cec chain A Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 94.8% Identity: 22% 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 Phyre2 PDB 3bs3 chain A Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 94.8% Identity: 14% PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis Phyre2 PDB 1x57 chain A domain 1 Region: 12 - 48 Aligned: 37 Modelled: 37 Confidence: 94.7% Identity: 16% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: EDF1-like Phyre2 PDB 1r69 chain A Region: 12 - 46 Aligned: 35 Modelled: 35 Confidence: 94.4% Identity: 23% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 3mlf chain C Region: 12 - 42 Aligned: 31 Modelled: 31 Confidence: 94.3% Identity: 6% PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. Phyre2 PDB 1rio chain A Region: 12 - 74 Aligned: 63 Modelled: 61 Confidence: 94.3% Identity: 14% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 1zs4 chain A domain 1 Region: 12 - 37 Aligned: 26 Modelled: 26 Confidence: 94.3% Identity: 31% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Bacteriophage CII protein Phyre2 PDB 1lli chain B Region: 12 - 60 Aligned: 49 Modelled: 49 Confidence: 94.3% Identity: 18% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 1 d1rzsa_ 2 c3bd1B_ 3 c2hinA_ 4 c2fjrB_ 5 c2jvlA_ 6 c2ebyA_ 7 c3omtA_ 8 c3trbA_ 9 c2kpjA_ 10 d2icta1 11 c2ppxA_ 12 d2ppxa1 13 c3cecA_ 14 c3bs3A_ 15 d1x57a1 16 d1r69a_ 17 c3mlfC_ 18 d1rioa_ 19 d1zs4a1 20 d1llib_ 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

Detailed template information

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

1 d1rzsa_ 99.9 33 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 2 c3bd1B_ 99.7 25 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 3 c2hinA_ 99.2 20 PDB header:transcription Chain: A: PDB Molecule:repressor protein; PDBTitle: structure of n15 cro at 1.05 a: an ortholog of lambda cro2 with a completely different but equally effective3 dimerization mechanism 4 c2fjrB_ 97.5 23 PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 5 c2jvlA_ 95.9 17 PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei 6 c2ebyA_ 95.5 16 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 7 c3omtA_ 95.4 16 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. 8 c3trbA_ 95.4 24 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 9 c2kpjA_ 95.3 19 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 10 d2icta1 95.0 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 11 c2ppxA_ 94.8 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1735; PDBTitle: crystal structure of a hth xre-family like protein from agrobacterium2 tumefaciens 12 d2ppxa1 94.8 20 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 13 c3cecA_ 94.8 22 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 14 c3bs3A_ 94.8 14 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of a putative dna-binding protein from bacteroides2 fragilis 15 d1x57a1 94.7 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like 16 d1r69a_ 94.4 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 17 c3mlfC_ 94.3 6 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. 18 d1rioa_ 94.3 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 19 d1zs4a1 94.3 31 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Bacteriophage CII protein 20 d1llib_ 94.3 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 21 c2pijB_ not modelled 94.2 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 22 d1lmb3_ not modelled 94.2 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 23 d1utxa_ not modelled 94.0 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 24 d2croa_ not modelled 94.0 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 25 d1adra_ not modelled 93.9 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 26 c3t76A_ not modelled 93.8 19 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 27 c3op9A_ not modelled 93.8 14 PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua 28 d1d1la_ not modelled 93.7 28 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 29 d4croa_ not modelled 93.7 28 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 30 c3ivpD_ not modelled 93.6 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. 31 c3fmyA_ not modelled 93.5 9 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) 32 d1sq8a_ not modelled 93.5 20 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 33 c2xcjB_ not modelled 93.4 26 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 34 c2ef8A_ not modelled 92.9 13 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is 35 d2jn6a1 not modelled 92.9 34 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 36 c3bdnB_ not modelled 92.7 13 PDB header:transcription/dna Chain: B: PDB Molecule:lambda repressor; PDBTitle: crystal structure of the lambda repressor 37 d2r1jl1 not modelled 92.7 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 38 d3orca_ not modelled 92.7 28 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 39 c1b9nA_ not modelled 92.4 28 PDB header:transcription Chain: A: PDB Molecule:protein (mode); PDBTitle: regulator from escherichia coli 40 c2ijlB_ not modelled 92.3 12 PDB header:transcription Chain: B: PDB Molecule:molybdenum-binding transcriptional repressor; PDBTitle: the structure of a putative mode from agrobacterium tumefaciens. 41 d1y9qa1 not modelled 92.2 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain 42 d1b9ma1 not modelled 92.1 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:N-terminal domain of molybdate-dependent transcriptional regulator ModE 43 d2b5aa1 not modelled 92.0 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 44 c3gn5B_ not modelled 91.9 9 PDB header:dna binding protein Chain: B: PDB Molecule:hth-type transcriptional regulator mqsa (ygit/b3021); PDBTitle: structure of the e. coli protein mqsa (ygit/b3021) 45 d1g2ha_ not modelled 91.8 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 46 d2a6ca1 not modelled 91.2 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 47 c1b0nA_ not modelled 91.1 22 PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex 48 c2o38A_ not modelled 91.1 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: putative xre family transcriptional regulator 49 d2o38a1 not modelled 91.1 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 50 c3f52A_ not modelled 91.0 16 PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum 51 c3t1bB_ not modelled 91.0 21 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: crystal structure of the full-length aphb n100e variant 52 c3dnvB_ not modelled 90.8 11 PDB header:transcription/dna Chain: B: PDB Molecule:hth-type transcriptional regulator hipb; PDBTitle: mdt protein 53 c1y9qA_ not modelled 90.7 26 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 d2esna1 not modelled 90.7 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LysR-like transcriptional regulators 55 c3clcC_ not modelled 90.5 5 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 56 c3fzvC_ not modelled 90.5 16 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 57 c1iz1B_ not modelled 90.3 13 PDB header:dna binding protein Chain: B: PDB Molecule:lysr-type regulatory protein; PDBTitle: crystal structure of cbnr, a lysr family transcriptional2 regulator 58 d1y7ya1 not modelled 89.8 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 59 c3fzjC_ not modelled 89.7 21 PDB header:transcription regulator Chain: C: PDB Molecule:lysr type regulator of tsambcd; PDBTitle: tsar low resolution crystal structure, tetragonal form 60 c3lisB_ not modelled 89.6 35 PDB header:transcription Chain: B: PDB Molecule:csp231i c protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form) 61 d1ixca1 not modelled 89.2 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LysR-like transcriptional regulators 62 c3m1eA_ not modelled 89.1 29 PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional regulator benm; PDBTitle: crystal structure of benm_dbd 63 c3eusB_ not modelled 89.0 8 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi 64 c2esnC_ not modelled 88.9 17 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 65 c3f6wE_ not modelled 88.6 11 PDB header:dna binding protein Chain: E: PDB Molecule:xre-family like protein; PDBTitle: xre-family like protein from pseudomonas syringae pv. tomato str.2 dc3000 66 d1b0na2 not modelled 88.6 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 67 c2ewtA_ not modelled 87.7 22 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of the dna-binding domain of bldd 68 c3ispA_ not modelled 86.3 17 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional regulator PDBTitle: crystal structure of argp from mycobacterium tuberculosis 69 c2bnoA_ not modelled 86.1 16 PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis. 70 c2rn7A_ not modelled 86.1 17 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 71 c3b7hA_ not modelled 85.0 16 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 72 c3hhgF_ not modelled 84.3 13 PDB header:transcription regulator Chain: F: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: structure of crga, a lysr-type transcriptional regulator from2 neisseria meningitidis. 73 c3kxaD_ not modelled 83.9 24 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae 74 d1j9ia_ not modelled 80.7 24 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Terminase gpNU1 subunit domain 75 c3e7lD_ not modelled 79.3 26 PDB header:transcription regulator Chain: D: PDB Molecule:transcriptional regulator (ntrc family); PDBTitle: crystal structure of sigma54 activator ntrc4's dna binding2 domain 76 d1fipa_ not modelled 78.5 26 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 77 c3mkyP_ not modelled 77.9 24 PDB header:dna binding protein/dna Chain: P: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form 78 d1ntca_ not modelled 77.4 31 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 79 d1etxa_ not modelled 77.3 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 80 d1etob_ not modelled 77.1 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 81 c3mkzU_ not modelled 77.1 23 PDB header:dna-binding protein/dna Chain: U: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-272)-18mer complex, p21 form 82 c3k2zA_ not modelled 74.9 15 PDB header:hydrolase Chain: A: PDB Molecule:lexa repressor; PDBTitle: crystal structure of a lexa protein from thermotoga maritima 83 c1umqA_ not modelled 73.2 10 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 84 d1umqa_ not modelled 73.2 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:FIS-like 85 c2zhhA_ not modelled 72.8 18 PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr 86 d2ofya1 not modelled 72.4 26 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 87 d2ev0a1 not modelled 72.4 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 88 d1g3wa1 not modelled 71.8 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 89 c1hlvA_ not modelled 71.5 18 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 90 d2isya1 not modelled 70.6 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Iron-dependent repressor protein 91 c2elhA_ not modelled 68.8 32 PDB header:dna binding protein Chain: A: PDB Molecule:cg11849-pa; PDBTitle: solution structure of the cenp-b n-terminal dna-binding2 domain of fruit fly distal antenna cg11849-pa 92 d1bw6a_ not modelled 68.3 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 93 c1u78A_ not modelled 66.4 5 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 94 c2vz4A_ not modelled 66.0 36 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 95 c3qaoA_ not modelled 64.8 30 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 96 c1r71B_ not modelled 64.6 17 PDB header:transcription/dna Chain: B: PDB Molecule:transcriptional repressor protein korb; PDBTitle: crystal structure of the dna binding domain of korb in2 complex with the operator dna 97 c3gpvA_ not modelled 63.5 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 98 d2ao9a1 not modelled 63.0 25 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Nanomeric phage protein-like 99 d1r71a_ not modelled 62.6 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 100 c6paxA_ not modelled 62.0 0 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 101 d2cg4a1 not modelled 61.4 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 102 d1k78a1 not modelled 61.3 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 103 c2jmlA_ not modelled 60.0 29 PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor 104 c3gp4B_ not modelled 59.8 14 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of putative merr family transcriptional regulator2 from listeria monocytogenes 105 c2ev5B_ not modelled 59.3 17 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator mntr; PDBTitle: bacillus subtilis manganese transport regulator (mntr)2 bound to calcium 106 d1pdnc_ not modelled 58.7 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 107 d1ic8a2 not modelled 57.5 11 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 108 d1hlva1 not modelled 57.3 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Centromere-binding 109 d1i1ga1 not modelled 55.9 22 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 110 d1lcda_ not modelled 55.7 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 111 c3pxpA_ not modelled 55.1 13 PDB header:transcription regulator Chain: A: PDB Molecule:helix-turn-helix domain protein; PDBTitle: crystal structure of a pas and dna binding domain containing protein2 (caur_2278) from chloroflexus aurantiacus j-10-fl at 2.30 a3 resolution 112 d1r8ea1 not modelled 55.1 15 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 113 d1q06a_ not modelled 53.9 15 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 114 d2d1ha1 not modelled 53.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:TrmB-like 115 c2wusR_ not modelled 53.2 20 PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz 116 c2h09A_ not modelled 52.4 11 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator mntr; PDBTitle: crystal structure of diphtheria toxin repressor like protein2 from e. coli 117 d6paxa1 not modelled 52.0 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Paired domain 118 d1ku3a_ not modelled 51.9 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 119 c2l8nA_ not modelled 51.3 20 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 120 d1vz0a1 not modelled 51.1 12 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