Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	H	S	V	L	F	A	T	A	F	A	T	L	I	S	T	Q	T	F	A	A	D	L	P	G	K	G	I	T	V	N	P	V	Q	S	T	I	T	E	E	T	F	Q	T	L	L	V	S	R	A	L	E	K	L	G	Y	T	V	N
Secondary structure
SS confidence
Disorder		?	?																?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	P	S	E	V	D	Y	N	V	G	Y	T	S	L	A	S	G	D	A	T	F	T	A	V	N	W	T	P	L	H	D	N	M	Y	E	A	A	G	G	D	K	K	F	Y	R	E	G	V	F	V	N	G	A	A	Q	G	Y	L	I	D
Secondary structure
SS confidence
Disorder				?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	K	T	A	D	Q	Y	K	I	T	N	I	A	Q	L	K	D	P	K	I	A	K	L	F	D	T	N	G	D	G	K	A	D	L	T	G	C	N	P	G	W	G	C	E	G	A	I	N	H	Q	L	A	A	Y	E	L	T	N	T	V
Secondary structure
SS confidence
Disorder																										?	?	?	?	?																									?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	H	N	Q	G	N	Y	A	A	M	M	A	D	T	I	S	R	Y	K	E	G	K	P	V	F	Y	Y	T	W	T	P	Y	W	V	S	N	E	L	K	P	G	K	D	V	V	W	L	Q	V	P	F	S	A	L	P	G	D	K	N	A
Secondary structure
SS confidence
Disorder				?																																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		D	T	K	L	P	N	G	A	N	Y	G	F	P	V	S	T	M	H	I	V	A	N	K	A	W	A	E	K	N	P	A	A	A	K	L	F	A	I	M	Q	L	P	V	A	D	I	N	A	Q	N	A	I	M	H	D	G	K	A	S	E
Secondary structure
SS confidence
Disorder																																																								?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330
Sequence		G	D	I	Q	G	H	V	D	G	W	I	K	A	H	Q	Q	Q	F	D	G	W	V	N	E	A	L	A	A	Q	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 1r9l chain A Region: 22 - 330 Aligned: 309 Modelled: 309 Confidence: 100.0% Identity: 100% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2rej chain A Region: 26 - 329 Aligned: 273 Modelled: 282 Confidence: 100.0% Identity: 19% PDB header:choline-binding protein Chain: A: PDB Molecule:putative glycine betaine abc transporter protein; PDBTitle: abc-transporter choline binding protein in unliganded semi-2 closed conformation Phyre2 PDB 3o66 chain A Region: 27 - 314 Aligned: 247 Modelled: 258 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter Phyre2 PDB 3tmg chain A Region: 29 - 327 Aligned: 261 Modelled: 274 Confidence: 100.0% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:glycine betaine, l-proline abc transporter, PDBTitle: crystal structure of glycine betaine, l-proline abc transporter,2 glycine/betaine/l-proline-binding protein (prox) from borrelia3 burgdorferi Phyre2 PDB 3r6u chain A Region: 29 - 314 Aligned: 247 Modelled: 268 Confidence: 100.0% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis Phyre2 PDB 3ppp chain A Region: 29 - 314 Aligned: 247 Modelled: 263 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline-binding protein; PDBTitle: structures of the substrate-binding protein provide insights into the2 multiple compatible solutes binding specificities of bacillus3 subtilis abc transporter opuc Phyre2 PDB 1sw5 chain A Region: 29 - 314 Aligned: 245 Modelled: 263 Confidence: 100.0% Identity: 15% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3l6g chain A Region: 29 - 325 Aligned: 255 Modelled: 269 Confidence: 100.0% Identity: 22% PDB header:glycine betaine-binding protein Chain: A: PDB Molecule:betaine abc transporter permease and substrate binding PDBTitle: crystal structure of lactococcal opuac in its open conformation Phyre2 PDB 3chg chain B Region: 151 - 328 Aligned: 152 Modelled: 161 Confidence: 100.0% Identity: 20% PDB header:ligand binding protein Chain: B: PDB Molecule:glycine betaine-binding protein; PDBTitle: the compatible solute-binding protein opuac from bacillus2 subtilis in complex with dmsa Phyre2 PDB 3uif chain A Region: 26 - 320 Aligned: 226 Modelled: 241 Confidence: 99.8% Identity: 16% PDB header:transport protein Chain: A: PDB Molecule:sulfonate abc transporter, periplasmic sulfonate-binding PDBTitle: crystal structure of putative sulfonate abc transporter, periplasmic2 sulfonate-binding protein ssua from methylobacillus flagellatus kt Phyre2 PDB 3e4r chain A Region: 25 - 324 Aligned: 230 Modelled: 252 Confidence: 99.7% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of the alkanesulfonate binding protein2 (ssua) from the phytopathogenic bacteria xanthomonas3 axonopodis pv. citri bound to hepes Phyre2 PDB 2x26 chain A Region: 28 - 324 Aligned: 226 Modelled: 245 Confidence: 99.7% Identity: 18% PDB header:transport protein Chain: A: PDB Molecule:periplasmic aliphatic sulphonates-binding protein; PDBTitle: crystal structure of the periplasmic aliphatic sulphonate2 binding protein ssua from escherichia coli Phyre2 PDB 3ix1 chain A Region: 25 - 320 Aligned: 229 Modelled: 241 Confidence: 99.7% Identity: 13% PDB header:biosynthetic protein Chain: A: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans Phyre2 PDB 3ix1 chain B Region: 25 - 320 Aligned: 229 Modelled: 253 Confidence: 99.7% Identity: 13% PDB header:biosynthetic protein Chain: B: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans Phyre2 PDB 2de4 chain B Region: 31 - 325 Aligned: 243 Modelled: 263 Confidence: 99.7% Identity: 19% PDB header:hydrolase Chain: B: PDB Molecule:dibenzothiophene desulfurization enzyme b; PDBTitle: crystal structure of dszb c27s mutant in complex with biphenyl-2-2 sulfinic acid Phyre2 PDB 3un6 chain A Region: 29 - 323 Aligned: 240 Modelled: 262 Confidence: 99.6% Identity: 9% PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein saouhsc_00137; PDBTitle: 2.0 angstrom crystal structure of ligand binding component of abc-type2 import system from staphylococcus aureus with zinc bound Phyre2 PDB 3qsl chain A Region: 25 - 316 Aligned: 234 Modelled: 254 Confidence: 99.6% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 Phyre2 PDB 2x7p chain A Region: 30 - 324 Aligned: 228 Modelled: 238 Confidence: 99.6% Identity: 9% PDB header:unknown function Chain: A: PDB Molecule:possible thiamine biosynthesis enzyme; PDBTitle: the conserved candida albicans ca3427 gene product defines a new2 family of proteins exhibiting the generic periplasmic binding3 protein structural fold Phyre2 PDB 3hn0 chain A Region: 29 - 324 Aligned: 217 Modelled: 224 Confidence: 99.5% Identity: 10% PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of an abc transporter (bdi_1369) from2 parabacteroides distasonis at 1.75 a resolution Phyre2 PDB 3gxa chain A Region: 29 - 278 Aligned: 195 Modelled: 213 Confidence: 99.5% Identity: 20% PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 Phyre2 1 d1r9la_ 2 c2rejA_ 3 c3o66A_ 4 c3tmgA_ 5 c3r6uA_ 6 c3pppA_ 7 d1sw5a_ 8 c3l6gA_ 9 c3chgB_ 10 c3uifA_ 11 c3e4rA_ 12 c2x26A_ 13 c3ix1A_ 14 c3ix1B_ 15 c2de4B_ 16 c3un6A_ 17 c3qslA_ 18 c2x7pA_ 19 c3hn0A_ 20 c3gxaA_ 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

Detailed template information

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

1 d1r9la_ 100.0 100 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 c2rejA_ 100.0 19 PDB header:choline-binding protein Chain: A: PDB Molecule:putative glycine betaine abc transporter protein; PDBTitle: abc-transporter choline binding protein in unliganded semi-2 closed conformation 3 c3o66A_ 100.0 13 PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter 4 c3tmgA_ 100.0 22 PDB header:transport protein Chain: A: PDB Molecule:glycine betaine, l-proline abc transporter, PDBTitle: crystal structure of glycine betaine, l-proline abc transporter,2 glycine/betaine/l-proline-binding protein (prox) from borrelia3 burgdorferi 5 c3r6uA_ 100.0 14 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 6 c3pppA_ 100.0 13 PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline-binding protein; PDBTitle: structures of the substrate-binding protein provide insights into the2 multiple compatible solutes binding specificities of bacillus3 subtilis abc transporter opuc 7 d1sw5a_ 100.0 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 8 c3l6gA_ 100.0 22 PDB header:glycine betaine-binding protein Chain: A: PDB Molecule:betaine abc transporter permease and substrate binding PDBTitle: crystal structure of lactococcal opuac in its open conformation 9 c3chgB_ 100.0 20 PDB header:ligand binding protein Chain: B: PDB Molecule:glycine betaine-binding protein; PDBTitle: the compatible solute-binding protein opuac from bacillus2 subtilis in complex with dmsa 10 c3uifA_ 99.8 16 PDB header:transport protein Chain: A: PDB Molecule:sulfonate abc transporter, periplasmic sulfonate-binding PDBTitle: crystal structure of putative sulfonate abc transporter, periplasmic2 sulfonate-binding protein ssua from methylobacillus flagellatus kt 11 c3e4rA_ 99.7 13 PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of the alkanesulfonate binding protein2 (ssua) from the phytopathogenic bacteria xanthomonas3 axonopodis pv. citri bound to hepes 12 c2x26A_ 99.7 18 PDB header:transport protein Chain: A: PDB Molecule:periplasmic aliphatic sulphonates-binding protein; PDBTitle: crystal structure of the periplasmic aliphatic sulphonate2 binding protein ssua from escherichia coli 13 c3ix1A_ 99.7 13 PDB header:biosynthetic protein Chain: A: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans 14 c3ix1B_ 99.7 13 PDB header:biosynthetic protein Chain: B: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans 15 c2de4B_ 99.7 19 PDB header:hydrolase Chain: B: PDB Molecule:dibenzothiophene desulfurization enzyme b; PDBTitle: crystal structure of dszb c27s mutant in complex with biphenyl-2-2 sulfinic acid 16 c3un6A_ 99.6 9 PDB header:unknown function Chain: A: PDB Molecule:hypothetical protein saouhsc_00137; PDBTitle: 2.0 angstrom crystal structure of ligand binding component of abc-type2 import system from staphylococcus aureus with zinc bound 17 c3qslA_ 99.6 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 18 c2x7pA_ 99.6 9 PDB header:unknown function Chain: A: PDB Molecule:possible thiamine biosynthesis enzyme; PDBTitle: the conserved candida albicans ca3427 gene product defines a new2 family of proteins exhibiting the generic periplasmic binding3 protein structural fold 19 c3hn0A_ 99.5 10 PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of an abc transporter (bdi_1369) from2 parabacteroides distasonis at 1.75 a resolution 20 c3gxaA_ 99.5 20 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 21 c3ir1F_ not modelled 99.4 18 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 22 c3tqwA_ not modelled 99.4 23 PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii 23 c2g29A_ not modelled 99.4 19 PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein nrta; PDBTitle: crystal structure of the periplasmic nitrate-binding2 protein nrta from synechocystis pcc 6803 24 c2i4cA_ not modelled 99.4 16 PDB header:transport protein Chain: A: PDB Molecule:bicarbonate transporter; PDBTitle: crystal structure of bicarbonate transport protein cmpa from2 synechocystis sp. pcc 6803 in complex with bicarbonate and calcium 25 c1p99A_ not modelled 99.4 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus 26 d1p99a_ not modelled 99.4 19 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 27 c3k2dA_ not modelled 99.4 20 PDB header:immune system Chain: A: PDB Molecule:abc-type metal ion transport system, periplasmic component; PDBTitle: crystal structure of immunogenic lipoprotein a from vibrio vulnificus 28 d1xs5a_ not modelled 99.4 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 29 d2nxoa1 not modelled 98.9 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 30 d1us5a_ not modelled 98.7 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 31 c3n5lA_ not modelled 98.6 11 PDB header:transport protein Chain: A: PDB Molecule:binding protein component of abc phosphonate transporter; PDBTitle: crystal structure of a binding protein component of abc phosphonate2 transporter (pa3383) from pseudomonas aeruginosa at 1.97 a resolution 32 d2czla1 not modelled 98.1 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 33 d1zbma1 not modelled 97.8 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 34 c3muqB_ not modelled 97.5 13 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized conserved protein; PDBTitle: the crystal structure of a conserved functionally unknown protein from2 vibrio parahaemolyticus rimd 2210633 35 c3lr1A_ not modelled 97.4 12 PDB header:transport protein Chain: A: PDB Molecule:tungstate abc transporter, periplasmic tungstate- PDBTitle: the crystal structure of the tungstate abc transporter from2 geobacter sulfurreducens 36 c2dvzA_ not modelled 97.2 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 37 d1sbpa_ not modelled 97.1 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 38 c2f5xC_ not modelled 97.0 11 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 39 c2qpqC_ not modelled 96.9 12 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 40 c3b50A_ not modelled 96.8 15 PDB header:transport protein Chain: A: PDB Molecule:sialic acid-binding periplasmic protein siap; PDBTitle: structure of h. influenzae sialic acid binding protein2 bound to neu5ac. 41 c2pfyA_ not modelled 96.8 11 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of dctp7, a bordetella pertussis2 extracytoplasmic solute receptor binding pyroglutamic acid 42 d1amfa_ not modelled 96.7 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 43 c3fxbB_ not modelled 96.7 10 PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha 44 c2vpnB_ not modelled 96.7 11 PDB header:transport Chain: B: PDB Molecule:periplasmic substrate binding protein; PDBTitle: high-resolution structure of the periplasmic ectoine-2 binding protein from teaabc trap-transporter of halomonas3 elongata 45 c3kn3C_ not modelled 96.6 11 PDB header:transcription Chain: C: PDB Molecule:putative periplasmic protein; PDBTitle: crystal structure of lysr substrate binding domain (25-263) of2 putative periplasmic protein from wolinella succinogenes 46 c2hpgB_ not modelled 96.6 11 PDB header:ligand binding protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding PDBTitle: the crystal structure of a thermophilic trap periplasmic2 binding protein 47 c2zzxD_ not modelled 96.5 9 PDB header:transport protein Chain: D: PDB Molecule:abc transporter, solute-binding protein; PDBTitle: crystal structure of a periplasmic substrate binding protein in2 complex with lactate 48 c3gyyC_ not modelled 96.5 12 PDB header:transport protein Chain: C: PDB Molecule:periplasmic substrate binding protein; PDBTitle: the ectoine binding protein of the teaabc trap transporter teaa in the2 apo-state 49 c2pfzA_ not modelled 96.4 12 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: crystal structure of dctp6, a bordetella pertussis2 extracytoplasmic solute receptor binding pyroglutamic acid 50 c3kzgB_ not modelled 96.3 13 PDB header:transport protein Chain: B: PDB Molecule:arginine 3rd transport system periplasmic binding PDBTitle: crystal structure of an arginine 3rd transport system2 periplasmic binding protein from legionella pneumophila 51 d2fyia1 not modelled 95.8 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 52 c3c9hB_ not modelled 95.5 11 PDB header:transport protein Chain: B: PDB Molecule:abc transporter, substrate binding protein; PDBTitle: crystal structure of the substrate binding protein of the abc2 transporter from agrobacterium tumefaciens 53 c3mplA_ not modelled 95.3 10 PDB header:signaling protein Chain: A: PDB Molecule:virulence sensor protein bvgs; PDBTitle: crystal structure of bordetella pertussis bvgs vft2 domain (double2 mutant f375e/q461e) 54 d2esna2 not modelled 95.3 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 55 c2hzkB_ not modelled 94.7 13 PDB header:ligand binding, transport protein Chain: B: PDB Molecule:trap-t family sorbitol/mannitol transporter, periplasmic PDBTitle: crystal structures of a sodium-alpha-keto acid binding subunit from a2 trap transporter in its open form 56 c3fj7A_ not modelled 94.7 12 PDB header:protein binding Chain: A: PDB Molecule:major antigenic peptide peb3; PDBTitle: crystal structure of l-phospholactate bound peb3 57 d2a5sa1 not modelled 94.5 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 58 d1xvxa_ not modelled 94.1 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 59 c2qryD_ not modelled 93.9 13 PDB header:transport protein Chain: D: PDB Molecule:thiamine-binding periplasmic protein; PDBTitle: periplasmic thiamin binding protein 60 d1pb7a_ not modelled 93.8 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 61 c2hxrA_ not modelled 93.6 11 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional regulator cynr; PDBTitle: structure of the ligand binding domain of e. coli cynr, a2 transcriptional regulator controlling cyanate metabolism 62 c2pt1A_ not modelled 93.2 13 PDB header:metal transport Chain: A: PDB Molecule:iron transport protein; PDBTitle: futa1 synechocystis pcc 6803 63 c2h5yC_ not modelled 92.8 11 PDB header:metal transport Chain: C: PDB Molecule:molybdate-binding periplasmic protein; PDBTitle: crystallographic structure of the molybdate-binding protein of2 xanthomonas citri at 1.7 ang resolution bound to molybdate 64 c2rc9A_ not modelled 92.8 11 PDB header:membrane protein Chain: A: PDB Molecule:glutamate [nmda] receptor subunit 3a; PDBTitle: crystal structure of the nr3a ligand binding core complex with acpc at2 1.96 angstrom resolution 65 c2q89A_ not modelled 92.3 15 PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter amino acid-binding protein; PDBTitle: crystal structure of ehub in complex with hydroxyectoine 66 c3o9pA_ not modelled 92.1 16 PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:periplasmic murein peptide-binding protein; PDBTitle: the structure of the escherichia coli murein tripeptide binding2 protein mppa 67 d1al3a_ not modelled 91.6 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 68 c1al3A_ not modelled 91.6 10 PDB header:transcription regulation Chain: A: PDB Molecule:cys regulon transcriptional activator cysb; PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes 69 d1vr5a1 not modelled 91.5 23 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 70 c2h9qC_ not modelled 91.3 10 PDB header:transcription Chain: C: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: crystal structure of the effector binding domain of a catm2 variant (r156h) 71 c1ztyA_ not modelled 91.3 16 PDB header:sugar binding protein, signaling protein Chain: A: PDB Molecule:chitin oligosaccharide binding protein; PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein 72 c3k4uA_ not modelled 91.3 11 PDB header:transport protein Chain: A: PDB Molecule:binding component of abc transporter; PDBTitle: crystal structure of putative binding component of abc transporter2 from wolinella succinogenes dsm 1740 complexed with lysine 73 c3pamB_ not modelled 90.9 17 PDB header:transport protein Chain: B: PDB Molecule:transmembrane protein; PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1 74 c2esnC_ not modelled 90.8 13 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 75 c3lvuB_ not modelled 90.7 19 PDB header:transport protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of abc transporter, periplasmic substrate-binding2 protein spo2066 from silicibacter pomeroyi 76 c2f7cA_ not modelled 90.5 7 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: catm effector binding domain with its effector cis,cis-muconate 77 d1dpea_ not modelled 89.6 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 78 c3tpaA_ not modelled 88.9 12 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 79 c2h9bB_ not modelled 88.9 8 PDB header:transcription Chain: B: PDB Molecule:hth-type transcriptional regulator benm; PDBTitle: crystal structure of the effector binding domain of a benm variant2 (benm r156h/t157s) 80 d1jeta_ not modelled 88.9 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 81 c2f78A_ not modelled 88.3 7 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator benm; PDBTitle: benm effector binding domain with its effector benzoate 82 c3ho7A_ not modelled 88.0 14 PDB header:transcription Chain: A: PDB Molecule:oxyr; PDBTitle: crystal structure of oxyr from porphyromonas gingivalis 83 c3m8uA_ not modelled 87.4 17 PDB header:transport protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: crystal structure of glutathione-binding protein a (gbpa) from2 haemophilus parasuis sh0165 in complex with glutathione disulfide3 (gssg) 84 c3n6uA_ not modelled 87.4 17 PDB header:transcription regulator Chain: A: PDB Molecule:lysr type regulator of tsambcd; PDBTitle: effector binding domain of tsar in complex with its inducer p-2 toluenesulfonate 85 d1ixca2 not modelled 87.2 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 86 d1i6aa_ not modelled 87.2 6 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 87 c2o1mB_ not modelled 86.7 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:probable amino-acid abc transporter PDBTitle: crystal structure of the probable amino-acid abc2 transporter extracellular-binding protein ytmk from3 bacillus subtilis. northeast structural genomics4 consortium target sr572 88 d1b1xa1 not modelled 86.4 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 89 c2ql3G_ not modelled 86.1 11 PDB header:transcription Chain: G: PDB Molecule:probable transcriptional regulator, lysr family protein; PDBTitle: crystal structure of the c-terminal domain of a probable lysr family2 transcriptional regulator from rhodococcus sp. rha1 90 d1ii5a_ not modelled 84.9 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 91 c2o7jA_ not modelled 84.5 16 PDB header:sugar binding protein Chain: A: PDB Molecule:oligopeptide abc transporter, periplasmic PDBTitle: the x-ray crystal structure of a thermophilic cellobiose2 binding protein bound with cellopentaose 92 d1y4ta_ not modelled 84.3 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 93 c3jv9B_ not modelled 84.2 12 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: the structure of a reduced form of oxyr from n. meningitidis 94 d1eh3a_ not modelled 84.2 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 95 d1dtza1 not modelled 84.1 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 96 d1zlqa1 not modelled 83.8 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 97 c2xx7B_ not modelled 83.7 22 PDB header:transport protein Chain: B: PDB Molecule:glutamate receptor 2; PDBTitle: crystal structure of 1-(4-(1-pyrrolidinylcarbonyl)phenyl)-3-2 (trifluoromethyl)-4,5,6,7-tetrahydro-1h-indazole in complex with3 the ligand binding domain of the rat glua2 receptor and glutamate4 at 2.2a resolution. 98 c2uyeA_ not modelled 81.5 9 PDB header:transcription Chain: A: PDB Molecule:regulatory protein; PDBTitle: double mutant y110s,f111v dntr from burkholderia sp. strain2 dnt in complex with thiocyanate 99 c2pyyB_ not modelled 81.3 6 PDB header:transport protein Chain: B: PDB Molecule:ionotropic glutamate receptor bacterial homologue; PDBTitle: crystal structure of the glur0 ligand-binding core from nostoc2 punctiforme in complex with (l)-glutamate 100 c3fd3A_ not modelled 81.2 16 PDB header:transcription regulator Chain: A: PDB Molecule:chromosome replication initiation inhibitor protein; PDBTitle: structure of the c-terminal domains of a lysr family protein from2 agrobacterium tumefaciens str. c58. 101 c2v25B_ not modelled 80.5 16 PDB header:receptor Chain: B: PDB Molecule:major cell-binding factor; PDBTitle: structure of the campylobacter jejuni antigen peb1a, an2 aspartate and glutamate receptor with bound aspartate 102 d1atga_ not modelled 79.8 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 103 d1xvya_ not modelled 79.7 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 104 d1utha_ not modelled 78.5 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 105 c3t66A_ not modelled 77.7 13 PDB header:transport protein Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein); PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans 106 c1q1kA_ not modelled 73.1 12 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: structure of atp-phosphoribosyltransferase from e. coli complexed with2 pr-atp 107 d1y9ua_ not modelled 72.0 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 108 d1pdaa1 not modelled 70.4 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 109 c2q2aD_ not modelled 70.4 14 PDB header:transport protein Chain: D: PDB Molecule:artj; PDBTitle: crystal structures of the arginine-, lysine-, histidine-2 binding protein artj from the thermophilic bacterium3 geobacillus stearothermophilus 110 c3crnA_ not modelled 70.1 15 PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver domain protein, chey-like; PDBTitle: crystal structure of response regulator receiver domain protein (chey-2 like) from methanospirillum hungatei jf-1 111 d1ryoa_ not modelled 70.0 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 112 c3eq1A_ not modelled 69.9 9 PDB header:transferase Chain: A: PDB Molecule:porphobilinogen deaminase; PDBTitle: the crystal structure of human porphobilinogen deaminase at2 2.8a resolution 113 c3ftoA_ not modelled 68.7 13 PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation 114 d1ieja_ not modelled 68.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 115 c1vfgB_ not modelled 67.2 9 PDB header:transferase/rna Chain: B: PDB Molecule:poly a polymerase; PDBTitle: crystal structure of trna nucleotidyltransferase complexed2 with a primer trna and an incoming atp analog 116 d1xoca1 not modelled 64.7 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 117 c2y7iB_ not modelled 64.3 6 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 118 c3r39A_ not modelled 64.3 14 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 119 c3hv1A_ not modelled 63.6 14 PDB header:transport protein Chain: A: PDB Molecule:polar amino acid abc uptake transporter substrate PDBTitle: crystal structure of a polar amino acid abc uptake2 transporter substrate binding protein from streptococcus3 thermophilus 120 d1h76a1 not modelled 63.3 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin

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