Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	H	E	N	Q	Q	P	Q	T	E	A	F	E	L	S	A	A	E	R	E	A	I	E	H	E	M	H	H	Y	E	D	P	R	A	A	S	I	E	A	L	K	I	V	Q	K	Q	R	G	W	V	P	D	G	A	I	H	A	I	A	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	L	G	I	P	A	S	D	V	E	G	V	A	T	F	Y	S	Q	I	F	R	Q	P	V	G	R	H	V	I	R	Y	C	D	S	V	V	C	H	I	N	G	Y	Q	G	I	Q	A	A	L	E	K	K	L	N	I	K	P	G	Q	T
Secondary structure
SS confidence
Disorder																						?			?																																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.
Sequence		T	F	D	G	R	F	T	L	L	P	T	C	C	L	G	N	C	D	K	G	P	N	M	M	I	D	E	D	T	H	A	H	L	T	P	E	A	I	P	E	L	L	E	R	Y	K
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 2fug chain 2 domain 1 Region: 14 - 166 Aligned: 153 Modelled: 153 Confidence: 100.0% Identity: 28% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: NQO2-like Phyre2 PDB 2auv chain A Region: 81 - 165 Aligned: 85 Modelled: 85 Confidence: 99.9% Identity: 29% PDB header:oxidoreductase Chain: A: PDB Molecule:potential nad-reducing hydrogenase subunit; PDBTitle: solution structure of hndac : a thioredoxin-like [2fe-2s]2 ferredoxin involved in the nadp-reducing hydrogenase3 complex Phyre2 PDB 1f37 chain B Region: 86 - 165 Aligned: 76 Modelled: 79 Confidence: 99.6% Identity: 25% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Thioredoxin-like 2Fe-2S ferredoxin Phyre2 PDB 1m2d chain A Region: 87 - 165 Aligned: 76 Modelled: 79 Confidence: 99.6% Identity: 22% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: Thioredoxin-like 2Fe-2S ferredoxin Phyre2 PDB 2q24 chain A Region: 32 - 82 Aligned: 43 Modelled: 51 Confidence: 80.9% Identity: 26% PDB header:transcription Chain: A: PDB Molecule:putative tetr family transcriptional regulator; PDBTitle: crystal structure of tetr transcriptional regulator sco0520 from2 streptomyces coelicolor Phyre2 PDB 3iuv chain A Region: 30 - 82 Aligned: 46 Modelled: 53 Confidence: 80.9% Identity: 20% 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 Phyre2 PDB 3m6z chain A Region: 13 - 71 Aligned: 56 Modelled: 59 Confidence: 79.8% Identity: 27% PDB header:isomerase Chain: A: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of an n-terminal 44 kda fragment of topoisomerase v2 in the presence of guanidium hydrochloride Phyre2 PDB 2csb chain A domain 5 Region: 13 - 71 Aligned: 56 Modelled: 59 Confidence: 76.2% Identity: 27% Fold: Topoisomerase V catalytic domain-like Superfamily: Topoisomerase V catalytic domain-like Family: Topoisomerase V catalytic domain-like Phyre2 PDB 2csd chain B Region: 13 - 71 Aligned: 56 Modelled: 59 Confidence: 71.9% Identity: 27% PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) Phyre2 PDB 1aop chain A domain 4 Region: 83 - 165 Aligned: 79 Modelled: 83 Confidence: 70.8% Identity: 16% Fold: Nitrite and sulphite reductase 4Fe-4S domain-like Superfamily: Nitrite and sulphite reductase 4Fe-4S domain-like Family: Nitrite and sulphite reductase 4Fe-4S domain-like Phyre2 PDB 1t33 chain A domain 1 Region: 33 - 82 Aligned: 42 Modelled: 50 Confidence: 69.8% Identity: 17% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 3jsj chain C Region: 33 - 82 Aligned: 42 Modelled: 50 Confidence: 69.4% Identity: 19% PDB header:transcription Chain: C: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of a putative tetr-transcriptional regulator2 (sav143) from streptomyces avermitilis ma-4680 at 2.10 a resolution Phyre2 PDB 2qwt chain A Region: 33 - 82 Aligned: 42 Modelled: 50 Confidence: 65.8% Identity: 26% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: crystal structure of the tetr transcription regulatory2 protein from mycobacterium vanbaalenii Phyre2 PDB 2dg8 chain D Region: 30 - 82 Aligned: 46 Modelled: 53 Confidence: 65.1% Identity: 17% PDB header:gene regulation Chain: D: PDB Molecule:putative tetr-family transcriptional regulatory protein; PDBTitle: crystal structure of the putative trasncriptional regulator sco75182 from streptomyces coelicolor a3(2) Phyre2 PDB 2rek chain A Region: 33 - 82 Aligned: 42 Modelled: 50 Confidence: 64.9% Identity: 24% PDB header:transcription Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of tetr-family transcriptional regulator Phyre2 PDB 1p7i chain A Region: 37 - 69 Aligned: 33 Modelled: 33 Confidence: 62.0% Identity: 12% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1au7 chain A domain 1 Region: 37 - 69 Aligned: 33 Modelled: 33 Confidence: 61.7% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1smy chain F domain 2 Region: 1 - 74 Aligned: 65 Modelled: 70 Confidence: 61.4% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors Family: Sigma4 domain Phyre2 PDB 2cra chain A domain 1 Region: 37 - 69 Aligned: 33 Modelled: 33 Confidence: 61.0% Identity: 6% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1nk3 chain P Region: 37 - 69 Aligned: 33 Modelled: 33 Confidence: 60.3% Identity: 12% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 1 d2fug21 2 c2auvA_ 3 d1f37b_ 4 d1m2da_ 5 c2q24A_ 6 c3iuvA_ 7 c3m6zA_ 8 d2csba5 9 c2csdB_ 10 d1aopa4 11 d1t33a1 12 c3jsjC_ 13 c2qwtA_ 14 c2dg8D_ 15 c2rekA_ 16 d1p7ia_ 17 d1au7a1 18 d1smyf2 19 d2craa1 20 d1nk3p_ 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

Detailed template information

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

1 d2fug21 100.0 28 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:NQO2-like 2 c2auvA_ 99.9 29 PDB header:oxidoreductase Chain: A: PDB Molecule:potential nad-reducing hydrogenase subunit; PDBTitle: solution structure of hndac : a thioredoxin-like [2fe-2s]2 ferredoxin involved in the nadp-reducing hydrogenase3 complex 3 d1f37b_ 99.6 25 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioredoxin-like 2Fe-2S ferredoxin 4 d1m2da_ 99.6 22 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioredoxin-like 2Fe-2S ferredoxin 5 c2q24A_ 80.9 26 PDB header:transcription Chain: A: PDB Molecule:putative tetr family transcriptional regulator; PDBTitle: crystal structure of tetr transcriptional regulator sco0520 from2 streptomyces coelicolor 6 c3iuvA_ 80.9 20 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 7 c3m6zA_ 79.8 27 PDB header:isomerase Chain: A: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of an n-terminal 44 kda fragment of topoisomerase v2 in the presence of guanidium hydrochloride 8 d2csba5 76.2 27 Fold:Topoisomerase V catalytic domain-like Superfamily:Topoisomerase V catalytic domain-like Family:Topoisomerase V catalytic domain-like 9 c2csdB_ 71.9 27 PDB header:isomerase Chain: B: PDB Molecule:topoisomerase v; PDBTitle: crystal structure of topoisomerase v (61 kda fragment) 10 d1aopa4 70.8 16 Fold:Nitrite and sulphite reductase 4Fe-4S domain-like Superfamily:Nitrite and sulphite reductase 4Fe-4S domain-like Family:Nitrite and sulphite reductase 4Fe-4S domain-like 11 d1t33a1 69.8 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 12 c3jsjC_ 69.4 19 PDB header:transcription Chain: C: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of a putative tetr-transcriptional regulator2 (sav143) from streptomyces avermitilis ma-4680 at 2.10 a resolution 13 c2qwtA_ 65.8 26 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: crystal structure of the tetr transcription regulatory2 protein from mycobacterium vanbaalenii 14 c2dg8D_ 65.1 17 PDB header:gene regulation Chain: D: PDB Molecule:putative tetr-family transcriptional regulatory protein; PDBTitle: crystal structure of the putative trasncriptional regulator sco75182 from streptomyces coelicolor a3(2) 15 c2rekA_ 64.9 24 PDB header:transcription Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of tetr-family transcriptional regulator 16 d1p7ia_ 62.0 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 17 d1au7a1 61.7 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 18 d1smyf2 61.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Sigma3 and sigma4 domains of RNA polymerase sigma factors Family:Sigma4 domain 19 d2craa1 61.0 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 20 d1nk3p_ 60.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 21 c2xsdC_ not modelled 58.4 18 PDB header:transcription/dna Chain: C: PDB Molecule:pou domain, class 3, transcription factor 1; PDBTitle: crystal structure of the dimeric oct-6 (pou3f1) pou domain2 bound to palindromic more dna 22 c2dmsA_ not modelled 58.0 15 PDB header:dna binding protein Chain: A: PDB Molecule:homeobox protein otx2; PDBTitle: solution structure of the homeobox domain of homeobox2 protein otx2 23 d1jhfa1 not modelled 57.2 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:LexA repressor, N-terminal DNA-binding domain 24 d1r7ha_ not modelled 57.2 26 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Thioltransferase 25 c2da2A_ not modelled 57.0 12 PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding protein; PDBTitle: solution structure of the second homeobox domain of at-2 binding transcription factor 1 (atbf1) 26 d1du0a_ not modelled 56.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 27 c3a01A_ not modelled 56.4 15 PDB header:gene regulation/dna Chain: A: PDB Molecule:homeodomain-containing protein; PDBTitle: crystal structure of aristaless and clawless homeodomains bound to dna 28 c2da1A_ not modelled 56.0 18 PDB header:transcription Chain: A: PDB Molecule:alpha-fetoprotein enhancer binding protein; PDBTitle: solution structure of the first homeobox domain of at-2 binding transcription factor 1 (atbf1) 29 d1fjla_ not modelled 55.6 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 30 c3ccyA_ not modelled 55.6 23 PDB header:transcription regulator Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of a tetr-family transcriptional regulator from2 bordetella parapertussis 12822 31 c3nauA_ not modelled 55.4 24 PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 2; PDBTitle: crystal structure of zhx2 hd2 (zinc-fingers and homeoboxes protein 2,2 homeodomain 2) 32 d1jt6a1 not modelled 55.0 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 33 c3ic4A_ not modelled 55.0 17 PDB header:oxidoreductase Chain: A: PDB Molecule:glutaredoxin (grx-1); PDBTitle: the crystal structure of the glutaredoxin(grx-1) from archaeoglobus2 fulgidus 34 d1fjlb_ not modelled 54.5 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 35 d2e1oa1 not modelled 54.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 36 d2cuea1 not modelled 54.1 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 37 d1zq3p1 not modelled 54.0 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 38 c3a03A_ not modelled 53.5 15 PDB header:gene regulation Chain: A: PDB Molecule:t-cell leukemia homeobox protein 2; PDBTitle: crystal structure of hox11l1 homeodomain 39 d1gt0c1 not modelled 53.3 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 40 c2dmuA_ not modelled 52.8 18 PDB header:dna binding protein Chain: A: PDB Molecule:homeobox protein goosecoid; PDBTitle: solution structure of the homeobox domain of homeobox2 protein goosecoid 41 d2hddb_ not modelled 52.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 42 c3anpD_ not modelled 52.2 21 PDB header:transcription Chain: D: PDB Molecule:transcriptional repressor, tetr family; PDBTitle: crystal structure of thermus thermophilus fadr, a tetr familly2 transcriptional repressor, in complex with lauroyl-coa. 43 d1dg9a_ not modelled 52.1 13 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:Phosphotyrosine protein phosphatases I Family:Low-molecular-weight phosphotyrosine protein phosphatases 44 c2ibdB_ not modelled 51.9 23 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:possible transcriptional regulator; PDBTitle: crystal structure of probable transcriptional regulatory protein2 rha5900 45 d1bw5a_ not modelled 51.8 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 46 d1ocpa_ not modelled 51.2 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 47 c2dg7A_ not modelled 51.1 11 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) 48 d1ig7a_ not modelled 50.8 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 49 d1ahdp_ not modelled 50.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 50 d1sana_ not modelled 50.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 51 d2fd5a1 not modelled 50.1 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 52 d1jgga_ not modelled 49.9 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 53 d1b8ia_ not modelled 49.6 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 54 d1octc1 not modelled 49.5 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 55 c3fiwB_ not modelled 49.4 16 PDB header:transcription regulator Chain: B: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: structure of sco0253, a tetr-family transcriptional regulator from2 streptomyces coelicolor 56 c3gziA_ not modelled 49.3 19 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: crystal structure of a transcriptional regulator of the tetr family2 (shew_3567) from shewanella loihica pv-4 at 2.05 a resolution 57 c2wgbB_ not modelled 49.2 23 PDB header:transcription Chain: B: PDB Molecule:tetr family transcriptional repressor lfrr; PDBTitle: crystal structure of the tetr-like transcriptional2 regulator lfrr from mycobacterium smegmatis 58 d1j5ya1 not modelled 49.0 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Biotin repressor-like 59 d1le8a_ not modelled 49.0 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 60 d1hdpa_ not modelled 48.7 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 61 d2ecba1 not modelled 48.1 6 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 62 d1b72a_ not modelled 47.9 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 63 c2hkuB_ not modelled 47.8 17 PDB header:transcription regulator Chain: B: PDB Molecule:a putative transcriptional regulator; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator from rhodococcus sp. rha1 64 d1zk8a1 not modelled 47.4 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 65 c1sgmA_ not modelled 47.4 16 PDB header:transcription Chain: A: PDB Molecule:putative hth-type transcriptional regulator yxaf; PDBTitle: crystal structure of hypothetical protein yxaf 66 d1p7jb_ not modelled 47.4 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 67 c3he0A_ not modelled 47.3 22 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator, tetr family; PDBTitle: the structure of a putative transcriptional regulator tetr family2 protein from vibrio parahaemolyticus. 68 d1z6ma1 not modelled 47.3 25 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:DsbA-like 69 c2k9mA_ not modelled 47.1 24 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma factor rpon; PDBTitle: structure of the core binding domain of sigma54 70 c2g3bB_ not modelled 46.9 26 PDB header:transcription Chain: B: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of putative tetr-family transcriptional regulator2 from rhodococcus sp. 71 c2gi4A_ not modelled 46.7 20 PDB header:hydrolase Chain: A: PDB Molecule:possible phosphotyrosine protein phosphatase; PDBTitle: solution structure of the low molecular weight protein2 tyrosine phosphatase from campylobacter jejuni. 72 d1ztra1 not modelled 46.5 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 73 c2vi6F_ not modelled 46.3 15 PDB header:transcription Chain: F: PDB Molecule:homeobox protein nanog; PDBTitle: crystal structure of the nanog homeodomain 74 d1vnda_ not modelled 45.9 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 75 c2yvhA_ not modelled 45.3 7 PDB header:transcription/dna Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of the operator-binding form of the multi-drug2 binding transcriptional repressor cgmr 76 d2v4jb3 not modelled 45.2 16 Fold:Nitrite and sulphite reductase 4Fe-4S domain-like Superfamily:Nitrite and sulphite reductase 4Fe-4S domain-like Family:Nitrite and sulphite reductase 4Fe-4S domain-like 77 c3bniA_ not modelled 45.1 16 PDB header:transcription regulator Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: crystal structure of tetr-family transcriptional regulator from2 streptomyces coelicolor 78 d1ftza_ not modelled 44.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 79 c2eh3A_ not modelled 44.6 16 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of aq_1058, a transcriptional regulator (terr/acrr2 family) from aquifex aeolicus vf5 80 d2id3a1 not modelled 43.9 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 81 d1mh3a1 not modelled 43.8 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 82 c1or7A_ not modelled 43.7 16 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma-e factor; PDBTitle: crystal structure of escherichia coli sigmae with the cytoplasmic2 domain of its anti-sigma rsea 83 c2akjA_ not modelled 43.6 8 PDB header:oxidoreductase Chain: A: PDB Molecule:ferredoxin--nitrite reductase, chloroplast; PDBTitle: structure of spinach nitrite reductase 84 c2nx4A_ not modelled 43.4 19 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. 85 c3narA_ not modelled 43.2 18 PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 1; PDBTitle: crystal structure of zhx1 hd4 (zinc-fingers and homeoboxes protein 1,2 homeodomain 4) 86 c2da5A_ not modelled 43.1 12 PDB header:dna binding protein Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 3; PDBTitle: solution structure of the second homeobox domain of zinc2 fingers and homeoboxes protein 3 (triple homeobox 13 protein) 87 c3f1bA_ not modelled 42.9 21 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. 88 c1au7B_ not modelled 42.8 18 PDB header:transcription/dna Chain: B: PDB Molecule:protein pit-1; PDBTitle: pit-1 mutant/dna complex 89 d1pufa_ not modelled 42.5 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 90 d9anta_ not modelled 42.3 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 91 c2qkoA_ not modelled 42.2 22 PDB header:transcription Chain: A: PDB Molecule:possible transcriptional regulator, tetr family protein; PDBTitle: crystal structure of transcriptional regulator rha06399 from2 rhodococcus sp. rha1 92 c2da7A_ not modelled 42.2 18 PDB header:dna binding protein Chain: A: PDB Molecule:zinc finger homeobox protein 1b; PDBTitle: solution structure of the homeobox domain of zinc finger2 homeobox protein 1b (smad interacting protein 1) 93 d1e3oc1 not modelled 42.0 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 94 c2of7A_ not modelled 41.9 21 PDB header:transcription Chain: A: PDB Molecule:putative tetr-family transcriptional regulator; PDBTitle: structural genomics, the crystal structure of a tetr-family2 transcriptional regulator from streptomyces coelicolor a3 95 c1vi0B_ not modelled 41.9 23 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator 96 c3ppbB_ not modelled 41.6 17 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 97 c2raeA_ not modelled 41.3 12 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator, acrr family protein; PDBTitle: crystal structure of a tetr/acrr family transcriptional regulator from2 rhodococcus sp. rha1 98 d1ftta_ not modelled 41.2 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 99 d1rr7a_ not modelled 41.1 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Middle operon regulator, Mor 100 c1rr7A_ not modelled 41.1 24 PDB header:transcription Chain: A: PDB Molecule:middle operon regulator; PDBTitle: crystal structure of the middle operon regulator protein of2 bacteriophage mu 101 c2fbqA_ not modelled 41.0 12 PDB header:transcription Chain: A: PDB Molecule:probable transcriptional regulator; PDBTitle: the crystal structure of transcriptional regulator pa3006 102 d1ui5a1 not modelled 40.8 23 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 103 c2g7gA_ not modelled 40.8 22 PDB header:transcription Chain: A: PDB Molecule:rha04620, putative transcriptional regulator; PDBTitle: the crystal structure of the putative transcriptional regulator2 rha04620 from rhodococcus sp. rha1 104 c2l9rA_ not modelled 40.5 12 PDB header:transcription Chain: A: PDB Molecule:homeobox protein nkx-3.1; PDBTitle: solution nmr structure of homeobox domain of homeobox protein nkx-3.12 from homo sapiens, northeast structural genomics consortium target3 hr6470a 105 c2zcxA_ not modelled 40.5 19 PDB header:transcription Chain: A: PDB Molecule:tetr-family transcriptional regulator; PDBTitle: crystal structure of tetr family transcriptional regulator2 sco7815 106 d1f43a_ not modelled 40.5 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 107 d3c7bb3 not modelled 40.3 18 Fold:Nitrite and sulphite reductase 4Fe-4S domain-like Superfamily:Nitrite and sulphite reductase 4Fe-4S domain-like Family:Nitrite and sulphite reductase 4Fe-4S domain-like 108 d2ecca1 not modelled 40.1 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 109 c3ni7A_ not modelled 40.1 16 PDB header:transcription regulator Chain: A: PDB Molecule:bacterial regulatory proteins, tetr family; PDBTitle: crystal structure of the tetr transcriptional regulator from2 nitrosomonas europaea atcc 19718 110 c2k9lA_ not modelled 40.0 16 PDB header:transcription Chain: A: PDB Molecule:rna polymerase sigma factor rpon; PDBTitle: structure of the core binding domain of sigma54 111 c3bjbE_ not modelled 40.0 19 PDB header:transcription regulator Chain: E: PDB Molecule:probable transcriptional regulator, tetr family protein; PDBTitle: crystal structure of a tetr transcriptional regulator from rhodococcus2 sp. rha1 112 c3hugA_ not modelled 39.9 19 PDB header:transcription/membrane protein Chain: A: PDB Molecule:rna polymerase sigma factor; PDBTitle: crystal structure of mycobacterium tuberculosis anti-sigma factor rsla2 in complex with -35 promoter binding domain of sigl 113 c2dmtA_ not modelled 39.7 15 PDB header:dna binding protein Chain: A: PDB Molecule:homeobox protein barh-like 1; PDBTitle: solution structure of the homeobox domain of homeobox2 protein barh-like 1 114 c2djnA_ not modelled 39.4 18 PDB header:transcription Chain: A: PDB Molecule:homeobox protein dlx-5; PDBTitle: the solution structure of the homeobox domain of human2 homeobox protein dlx-5 115 c2kgrA_ not modelled 39.3 11 PDB header:protein binding Chain: A: PDB Molecule:intersectin-1; PDBTitle: solution structure of protein itsn1 from homo sapiens.2 northeast structural genomics consortium target hr5524a 116 c3kkcB_ not modelled 39.1 16 PDB header:transcription regulator Chain: B: PDB Molecule:tetr family transcriptional regulator; PDBTitle: the crystal structure of tetr transcriptional regulator from2 streptococcus agalactiae 2603v 117 d1t56a1 not modelled 38.7 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 118 c2i10A_ not modelled 38.7 14 PDB header:transcription Chain: A: PDB Molecule:putative tetr transcriptional regulator; PDBTitle: putative tetr transcriptional regulator from rhodococcus sp. rha1 119 c1u2pA_ not modelled 38.5 15 PDB header:hydrolase Chain: A: PDB Molecule:low molecular weight protein-tyrosine- PDBTitle: crystal structure of mycobacterium tuberculosis low2 molecular protein tyrosine phosphatase (mptpa) at 1.9a3 resolution 120 c2dn0A_ not modelled 38.0 18 PDB header:transcription Chain: A: PDB Molecule:zinc fingers and homeoboxes protein 3; PDBTitle: solution structure of the second homeobox domain of human2 zinc fingers and homeoboxes protein 3

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