Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	A	Y	E	L	Q	A	L	R	H	I	F	A	M	T	I	D	E	C	A	T	W	I	A	Q	T	G	D	S	E	S	W	R	Q	W	E	N	G	K	C	A	I	P	D	R	V	V	E	Q	L	L	A	M	R	Q	Q	R	K	K
Secondary structure
SS confidence
Disorder		?	?	?																																?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.
Sequence		H	L	H	A	I	I	E	K	I	N	N	R	I	G	N	N	T	M	R	F	F	P	D	L	T	A	F	Q	R	V	Y	P	D	G	N	F	I	D	W	K	I	Y	Q	S	V	A	A	E	L	Y	A	H	D	L	E	R	L	C
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 1s4k chain A Region: 1 - 118 Aligned: 118 Modelled: 117 Confidence: 100.0% Identity: 56% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: YdiL-like Phyre2 PDB 3fmy chain A Region: 1 - 65 Aligned: 61 Modelled: 65 Confidence: 99.0% Identity: 18% 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) Phyre2 PDB 3gn5 chain B Region: 1 - 65 Aligned: 61 Modelled: 65 Confidence: 98.8% Identity: 18% 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) Phyre2 PDB 2ppx chain A Region: 5 - 65 Aligned: 59 Modelled: 61 Confidence: 98.7% Identity: 15% 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: 5 - 65 Aligned: 59 Modelled: 61 Confidence: 98.7% Identity: 15% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 1y9q chain A Region: 3 - 54 Aligned: 50 Modelled: 52 Confidence: 98.4% Identity: 18% 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 Phyre2 PDB 2ef8 chain A Region: 3 - 69 Aligned: 65 Modelled: 67 Confidence: 98.4% Identity: 18% PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is Phyre2 PDB 3mlf chain C Region: 6 - 54 Aligned: 47 Modelled: 46 Confidence: 98.4% Identity: 19% PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. Phyre2 PDB 1rio chain A Region: 3 - 54 Aligned: 50 Modelled: 48 Confidence: 98.3% Identity: 10% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 2xcj chain B Region: 3 - 51 Aligned: 47 Modelled: 49 Confidence: 98.3% Identity: 13% 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 Phyre2 PDB 1b0n chain A Region: 1 - 56 Aligned: 52 Modelled: 56 Confidence: 98.3% Identity: 13% PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex Phyre2 PDB 3f6w chain E Region: 3 - 73 Aligned: 66 Modelled: 69 Confidence: 98.3% Identity: 17% 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 Phyre2 PDB 1adr chain A Region: 1 - 53 Aligned: 51 Modelled: 53 Confidence: 98.2% Identity: 12% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: Phage repressors Phyre2 PDB 3op9 chain A Region: 3 - 53 Aligned: 49 Modelled: 51 Confidence: 98.2% Identity: 12% PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua Phyre2 PDB 2ict chain A domain 1 Region: 3 - 54 Aligned: 50 Modelled: 52 Confidence: 98.2% Identity: 14% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: SinR domain-like Phyre2 PDB 2jvl chain A Region: 3 - 53 Aligned: 49 Modelled: 51 Confidence: 98.2% Identity: 16% PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei Phyre2 PDB 3lis chain B Region: 1 - 54 Aligned: 52 Modelled: 54 Confidence: 98.2% Identity: 23% PDB header:transcription Chain: B: PDB Molecule:csp231i c protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form) Phyre2 PDB 3clc chain C Region: 3 - 69 Aligned: 65 Modelled: 67 Confidence: 98.1% Identity: 14% 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 Phyre2 PDB 3bs3 chain A Region: 6 - 53 Aligned: 46 Modelled: 48 Confidence: 98.1% Identity: 9% 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 3ivp chain D Region: 3 - 54 Aligned: 50 Modelled: 52 Confidence: 98.1% Identity: 16% 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. Phyre2 1 d1s4ka_ 2 c3fmyA_ 3 c3gn5B_ 4 c2ppxA_ 5 d2ppxa1 6 c1y9qA_ 7 c2ef8A_ 8 c3mlfC_ 9 d1rioa_ 10 c2xcjB_ 11 c1b0nA_ 12 c3f6wE_ 13 d1adra_ 14 c3op9A_ 15 d2icta1 16 c2jvlA_ 17 c3lisB_ 18 c3clcC_ 19 c3bs3A_ 20 c3ivpD_ 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

Detailed template information

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

1 d1s4ka_ 100.0 56 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:YdiL-like 2 c3fmyA_ 99.0 18 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) 3 c3gn5B_ 98.8 18 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) 4 c2ppxA_ 98.7 15 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 5 d2ppxa1 98.7 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 6 c1y9qA_ 98.4 18 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 7 c2ef8A_ 98.4 18 PDB header:transcription regulator Chain: A: PDB Molecule:putative transcription factor; PDBTitle: crystal structure of c.ecot38is 8 c3mlfC_ 98.4 19 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator; PDBTitle: putative transcriptional regulator from staphylococcus aureus. 9 d1rioa_ 98.3 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 10 c2xcjB_ 98.3 13 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 11 c1b0nA_ 98.3 13 PDB header:transcription regulator Chain: A: PDB Molecule:protein (sinr protein); PDBTitle: sinr protein/sini protein complex 12 c3f6wE_ 98.3 17 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 13 d1adra_ 98.2 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 14 c3op9A_ 98.2 12 PDB header:transcription regulator Chain: A: PDB Molecule:pli0006 protein; PDBTitle: crystal structure of transcriptional regulator from listeria innocua 15 d2icta1 98.2 14 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 16 c2jvlA_ 98.2 16 PDB header:transcription Chain: A: PDB Molecule:trmbf1; PDBTitle: nmr structure of the c-terminal domain of mbf1 of trichoderma reesei 17 c3lisB_ 98.2 23 PDB header:transcription Chain: B: PDB Molecule:csp231i c protein; PDBTitle: crystal structure of the restriction-modification controller protein2 c.csp231i (monoclinic form) 18 c3clcC_ 98.1 14 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 19 c3bs3A_ 98.1 9 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 20 c3ivpD_ 98.1 16 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. 21 c3f52A_ not modelled 98.1 14 PDB header:transcription activator Chain: A: PDB Molecule:clp gene regulator (clgr); PDBTitle: crystal structure of the clp gene regulator clgr from c. glutamicum 22 d2r1jl1 not modelled 98.1 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 23 d1x57a1 not modelled 98.1 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:EDF1-like 24 c3kxaD_ not modelled 98.0 24 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of ngo0477 from neisseria gonorrhoeae 25 c3eusB_ not modelled 98.0 12 PDB header:dna binding protein Chain: B: PDB Molecule:dna-binding protein; PDBTitle: the crystal structure of the dna binding protein from silicibacter2 pomeroyi 26 c3cecA_ not modelled 98.0 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 27 d1y9qa1 not modelled 98.0 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Probable transcriptional regulator VC1968, N-terminal domain 28 c3omtA_ not modelled 98.0 7 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. 29 d1y7ya1 not modelled 98.0 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 30 d2croa_ not modelled 98.0 27 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 31 d1b0na2 not modelled 98.0 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 32 d1r69a_ not modelled 98.0 24 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 33 d2b5aa1 not modelled 98.0 16 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 34 d1utxa_ not modelled 98.0 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 35 d1llib_ not modelled 98.0 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 36 c3dnvB_ not modelled 98.0 18 PDB header:transcription/dna Chain: B: PDB Molecule:hth-type transcriptional regulator hipb; PDBTitle: mdt protein 37 c3bdnB_ not modelled 98.0 10 PDB header:transcription/dna Chain: B: PDB Molecule:lambda repressor; PDBTitle: crystal structure of the lambda repressor 38 d1lmb3_ not modelled 98.0 10 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 39 d1sq8a_ not modelled 97.9 23 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 40 c2ebyA_ not modelled 97.9 15 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator ybaq; PDBTitle: crystal structure of a hypothetical protein from e. coli 41 c3trbA_ not modelled 97.9 16 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 42 d2o38a1 not modelled 97.8 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 43 c2o38A_ not modelled 97.8 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: putative xre family transcriptional regulator 44 c3fymA_ not modelled 97.8 14 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 45 c2axzC_ not modelled 97.8 8 PDB header:transcription Chain: C: PDB Molecule:prgx; PDBTitle: crystal structure of prgx/ccf10 complex 46 d2a6ca1 not modelled 97.8 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 47 c2fjrB_ not modelled 97.8 13 PDB header:transcription regulator Chain: B: PDB Molecule:repressor protein ci; PDBTitle: crystal structure of bacteriophage 186 48 c2ewtA_ not modelled 97.7 14 PDB header:dna binding protein Chain: A: PDB Molecule:putative dna-binding protein; PDBTitle: crystal structure of the dna-binding domain of bldd 49 c2kpjA_ not modelled 97.7 18 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 50 c2bnoA_ not modelled 97.7 25 PDB header:oxidoreductase Chain: A: PDB Molecule:epoxidase; PDBTitle: the structure of hydroxypropylphosphonic acid epoxidase2 from s. wedmorenis. 51 c2wusR_ not modelled 97.6 11 PDB header:structural protein Chain: R: PDB Molecule:putative uncharacterized protein; PDBTitle: bacterial actin mreb assembles in complex with cell shape2 protein rodz 52 c2auwB_ not modelled 97.6 9 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ne0471; PDBTitle: crystal structure of putative dna binding protein ne0471 from2 nitrosomonas europaea atcc 19718 53 c3pxpA_ not modelled 97.4 24 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 54 d2ox6a1 not modelled 97.3 18 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:YdiL-like 55 c3t76A_ not modelled 97.3 9 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator vanug; PDBTitle: crystal structure of transcriptional regulator vanug, form ii 56 d2ofya1 not modelled 97.3 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 57 c3b7hA_ not modelled 97.0 14 PDB header:structural protein Chain: A: PDB Molecule:prophage lp1 protein 11; PDBTitle: crystal structure of the prophage lp1 protein 11 58 c2qfcB_ not modelled 96.9 13 PDB header:transcription regulation Chain: B: PDB Molecule:plcr protein; PDBTitle: crystal structure of bacillus thuringiensis plcr complexed with papr 59 d2auwa1 not modelled 96.3 9 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE0471 C-terminal domain-like 60 c3bd1B_ not modelled 95.1 10 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 61 d2bnma1 not modelled 90.2 27 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:SinR domain-like 62 d1rzsa_ not modelled 86.6 24 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Phage repressors 63 d1lcda_ not modelled 84.4 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 64 c2w48D_ not modelled 83.4 15 PDB header:transcription Chain: D: PDB Molecule:sorbitol operon regulator; PDBTitle: crystal structure of the full-length sorbitol operon2 regulator sorc from klebsiella pneumoniae 65 d2ao9a1 not modelled 83.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Nanomeric phage protein-like 66 c3d1nK_ not modelled 82.9 14 PDB header:transcription regulator/dna Chain: K: PDB Molecule:pou domain, class 6, transcription factor 1; PDBTitle: structure of human brn-5 transcription factor in complex2 with corticotrophin-releasing hormone gene promoter 67 d2bjca1 not modelled 82.5 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 68 c3mkyP_ not modelled 82.5 21 PDB header:dna binding protein/dna Chain: P: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-323)-18mer dna complex, i23 form 69 c3l1pA_ not modelled 82.2 11 PDB header:transcription/dna Chain: A: PDB Molecule:pou domain, class 5, transcription factor 1; PDBTitle: pou protein:dna complex 70 c2lcvA_ not modelled 82.1 5 PDB header:transcription regulator Chain: A: PDB Molecule:hth-type transcriptional repressor cytr; PDBTitle: structure of the cytidine repressor dna-binding domain; an alternate2 calculation 71 d1a04a1 not modelled 81.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 72 d1zs4a1 not modelled 81.2 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:Bacteriophage CII protein 73 d1q06a_ not modelled 80.6 27 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:DNA-binding N-terminal domain of transcription activators 74 d1au7a2 not modelled 80.5 22 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 75 c1u78A_ not modelled 80.1 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 76 d2jn6a1 not modelled 80.0 10 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Cgl2762-like 77 d2hsga1 not modelled 79.9 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 78 d1r71a_ not modelled 79.8 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 79 d1e3oc2 not modelled 79.2 15 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 80 d1qpza1 not modelled 78.8 13 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 81 c2l8nA_ not modelled 77.7 5 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 82 c3mkzU_ not modelled 76.8 19 PDB header:dna-binding protein/dna Chain: U: PDB Molecule:protein sopb; PDBTitle: structure of sopb(155-272)-18mer complex, p21 form 83 c3k2zA_ not modelled 76.4 6 PDB header:hydrolase Chain: A: PDB Molecule:lexa repressor; PDBTitle: crystal structure of a lexa protein from thermotoga maritima 84 c2zhhA_ not modelled 76.1 19 PDB header:transcription Chain: A: PDB Molecule:redox-sensitive transcriptional activator soxr; PDBTitle: crystal structure of soxr 85 d1ic8a2 not modelled 75.8 7 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:POU-specific domain 86 d1i5za1 not modelled 75.7 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 87 d1ft9a1 not modelled 75.5 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 88 d1efaa1 not modelled 75.3 12 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 89 c1zljE_ not modelled 75.1 12 PDB header:transcription Chain: E: PDB Molecule:dormancy survival regulator; PDBTitle: crystal structure of the mycobacterium tuberculosis hypoxic2 response regulator dosr c-terminal domain 90 c1hf0A_ not modelled 75.1 8 PDB header:transcription factor Chain: A: PDB Molecule:octamer-binding transcription factor 1; PDBTitle: crystal structure of the dna-binding domain of oct-1 bound2 to dna as a dimer 91 d1l3la1 not modelled 74.8 27 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 92 d1biaa1 not modelled 74.7 4 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 93 c3r0aB_ not modelled 74.4 9 PDB header:transcription regulator Chain: B: PDB Molecule:putative transcriptional regulator; PDBTitle: possible transcriptional regulator from methanosarcina mazei go1 (gi2 21227196) 94 d1yioa1 not modelled 74.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 95 d2oz6a1 not modelled 74.4 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 96 c3sztB_ not modelled 73.8 18 PDB header:transcription Chain: B: PDB Molecule:quorum-sensing control repressor; PDBTitle: quorum sensing control repressor, qscr, bound to n-3-oxo-dodecanoyl-l-2 homoserine lactone 97 d1vz0a1 not modelled 73.8 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:KorB DNA-binding domain-like Family:KorB DNA-binding domain-like 98 d1p4wa_ not modelled 73.6 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 99 d2coha1 not modelled 73.5 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 100 c2jmlA_ not modelled 73.3 21 PDB header:transcription Chain: A: PDB Molecule:dna binding domain/transcriptional regulator; PDBTitle: solution structure of the n-terminal domain of cara repressor 101 d2bgca1 not modelled 73.1 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 102 d3e5ua1 not modelled 72.4 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 103 c1r71B_ not modelled 71.8 11 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 104 c2vz4A_ not modelled 71.5 5 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 105 d2h6ca1 not modelled 70.8 0 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 106 d1j9ia_ not modelled 69.7 7 Fold:Putative DNA-binding domain Superfamily:Putative DNA-binding domain Family:Terminase gpNU1 subunit domain 107 c3gp4B_ not modelled 69.4 18 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal structure of putative merr family transcriptional regulator2 from listeria monocytogenes 108 c2krfB_ not modelled 68.9 19 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulatory protein coma; PDBTitle: nmr solution structure of the dna binding domain of competence protein2 a 109 d1j5ya1 not modelled 68.9 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 110 d1fsea_ not modelled 68.7 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:C-terminal effector domain of the bipartite response regulators Family:GerE-like (LuxR/UhpA family of transcriptional regulators) 111 c1x3uA_ not modelled 68.4 12 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulatory protein fixj; PDBTitle: solution structure of the c-terminal transcriptional2 activator domain of fixj from sinorhizobium melilot 112 c3frwF_ not modelled 68.2 15 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:putative trp repressor protein; PDBTitle: crystal structure of putative trpr protein from ruminococcus obeum 113 d1uxda_ not modelled 67.8 27 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator 114 c2q0oA_ not modelled 67.3 12 PDB header:transcription Chain: A: PDB Molecule:probable transcriptional activator protein trar; PDBTitle: crystal structure of an anti-activation complex in bacterial quorum2 sensing 115 d2gaua1 not modelled 66.9 14 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:CAP C-terminal domain-like 116 c3korD_ not modelled 66.7 12 PDB header:transcription Chain: D: PDB Molecule:possible trp repressor; PDBTitle: crystal structure of a putative trp repressor from staphylococcus2 aureus 117 d2cg4a1 not modelled 66.0 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Lrp/AsnC-like transcriptional regulator N-terminal domain 118 c3qaoA_ not modelled 66.0 14 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 119 c1ic8B_ not modelled 65.7 8 PDB header:transcription/dna Chain: B: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: hepatocyte nuclear factor 1a bound to dna : mody3 gene2 product 120 d1s7oa_ not modelled 65.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:YlxM/p13-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