Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	L	L	K	L	W	A	G	S	L	V	M	L	A	A	V	S	L	P	L	Q	A	A	S	P	V	K	V	G	S	K	I	D	T	E	G	A	L	L	G	N	I	I	L	Q	V	L	E	S	H	G	V	P	T	V	N	K	V	Q
Secondary structure
SS confidence
Disorder		?	?	?														?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	G	T	T	P	V	V	R	G	A	I	T	S	G	E	L	D	I	Y	P	E	Y	T	G	N	G	A	F	F	F	K	D	E	N	D	A	A	W	K	N	A	Q	Q	G	Y	E	K	V	K	K	L	D	S	E	H	N	K	L	I	W
Secondary structure
SS confidence
Disorder				?																															?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	T	P	A	P	A	N	N	T	W	T	I	A	V	R	Q	D	V	A	E	K	N	K	L	T	S	L	A	D	L	S	R	Y	L	Q	E	G	G	T	F	K	L	A	A	S	A	E	F	I	E	R	A	D	A	L	P	A	F	E	K
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	Y	G	F	K	L	G	Q	D	Q	L	L	S	L	A	G	G	D	T	A	V	T	I	K	A	A	A	Q	Q	T	S	G	V	N	A	A	M	A	Y	G	T	D	G	P	V	A	A	L	G	L	Q	T	L	S	D	P	Q	G	V	Q
Secondary structure
SS confidence
Disorder										?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		P	I	Y	A	P	A	P	V	V	R	E	S	V	L	R	E	Y	P	Q	M	A	Q	W	L	Q	P	V	F	A	S	L	D	A	K	T	L	Q	Q	L	N	A	S	I	A	V	E	G	L	D	A	K	K	V	A	A	D	Y	L	K	Q
Secondary structure
SS confidence
Disorder																																													?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.
Sequence		K	G	W	T	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 1sw5 chain A Region: 25 - 305 Aligned: 270 Modelled: 281 Confidence: 100.0% Identity: 28% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3r6u chain A Region: 25 - 305 Aligned: 269 Modelled: 281 Confidence: 100.0% Identity: 23% PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis Phyre2 PDB 3o66 chain A Region: 23 - 304 Aligned: 269 Modelled: 282 Confidence: 100.0% Identity: 22% 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 3ppp chain A Region: 25 - 304 Aligned: 268 Modelled: 273 Confidence: 100.0% Identity: 26% 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 1r9l chain A Region: 18 - 301 Aligned: 261 Modelled: 266 Confidence: 100.0% Identity: 12% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2rej chain A Region: 22 - 301 Aligned: 255 Modelled: 262 Confidence: 100.0% Identity: 18% 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 3tmg chain A Region: 25 - 301 Aligned: 247 Modelled: 247 Confidence: 100.0% Identity: 13% 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 3l6g chain A Region: 24 - 301 Aligned: 244 Modelled: 256 Confidence: 100.0% Identity: 15% 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: 158 - 301 Aligned: 137 Modelled: 144 Confidence: 100.0% Identity: 18% 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 3e4r chain A Region: 21 - 304 Aligned: 244 Modelled: 255 Confidence: 99.5% Identity: 16% 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 3uif chain A Region: 25 - 266 Aligned: 203 Modelled: 220 Confidence: 99.5% Identity: 15% 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 3ix1 chain A Region: 23 - 302 Aligned: 228 Modelled: 241 Confidence: 99.4% 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 2de4 chain B Region: 27 - 303 Aligned: 234 Modelled: 239 Confidence: 99.4% Identity: 15% 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 3ix1 chain B Region: 23 - 302 Aligned: 228 Modelled: 252 Confidence: 99.4% 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 2x26 chain A Region: 23 - 303 Aligned: 230 Modelled: 257 Confidence: 99.3% Identity: 17% 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 3un6 chain A Region: 24 - 266 Aligned: 204 Modelled: 221 Confidence: 99.3% Identity: 15% 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: 26 - 264 Aligned: 202 Modelled: 217 Confidence: 99.2% 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: 25 - 303 Aligned: 231 Modelled: 257 Confidence: 99.2% Identity: 11% 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 2g29 chain A Region: 20 - 305 Aligned: 253 Modelled: 269 Confidence: 99.1% Identity: 13% 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 Phyre2 PDB 3gxa chain A Region: 25 - 282 Aligned: 207 Modelled: 230 Confidence: 99.1% Identity: 16% PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 Phyre2 PDB 3tpa chain A Region: 8 - 84 Aligned: 75 Modelled: 75 Confidence: 72.2% Identity: 13% PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis Phyre2 1 d1sw5a_ 2 c3r6uA_ 3 c3o66A_ 4 c3pppA_ 5 d1r9la_ 6 c2rejA_ 7 c3tmgA_ 8 c3l6gA_ 9 c3chgB_ 10 c3e4rA_ 11 c3uifA_ 12 c3ix1A_ 13 c2de4B_ 14 c3ix1B_ 15 c2x26A_ 16 c3un6A_ 17 c3qslA_ 18 c2x7pA_ 19 c2g29A_ 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 c3tpaA_ 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

Detailed template information

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

1 d1sw5a_ 100.0 28 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 c3r6uA_ 100.0 23 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 3 c3o66A_ 100.0 22 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 c3pppA_ 100.0 26 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 5 d1r9la_ 100.0 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 6 c2rejA_ 100.0 18 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 7 c3tmgA_ 100.0 13 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 8 c3l6gA_ 100.0 15 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 18 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 c3e4rA_ 99.5 16 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 11 c3uifA_ 99.5 15 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 12 c3ix1A_ 99.4 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 13 c2de4B_ 99.4 15 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 14 c3ix1B_ 99.4 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 c2x26A_ 99.3 17 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 16 c3un6A_ 99.3 15 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_ 99.2 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 18 c2x7pA_ 99.2 11 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 c2g29A_ 99.1 13 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 20 c3gxaA_ 99.1 16 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 21 c3hn0A_ not modelled 98.9 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 22 c1p99A_ not modelled 98.9 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus 23 d1p99a_ not modelled 98.9 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 24 c3tqwA_ not modelled 98.9 18 PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii 25 c2i4cA_ not modelled 98.9 12 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 26 c3k2dA_ not modelled 98.9 15 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 27 c3ir1F_ not modelled 98.9 15 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 28 d1us5a_ not modelled 98.8 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 29 d1xs5a_ not modelled 98.6 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 30 d2nxoa1 not modelled 98.3 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 31 c2h5yC_ not modelled 97.5 12 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 32 c3n5lA_ not modelled 97.4 14 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 33 c3muqB_ not modelled 97.1 12 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 34 c3lr1A_ not modelled 96.9 11 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 35 c3gyyC_ not modelled 96.9 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 36 d1sbpa_ not modelled 96.8 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 37 d1zbma1 not modelled 96.7 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 38 c2hpgB_ not modelled 96.6 16 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 39 d2czla1 not modelled 96.6 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 40 c2vpnB_ not modelled 96.5 13 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 41 c2pfzA_ not modelled 96.4 17 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 42 c2f5xC_ not modelled 96.3 14 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 43 d1amfa_ not modelled 96.0 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 44 c2pfyA_ not modelled 95.8 12 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 45 c3fj7A_ not modelled 95.2 12 PDB header:protein binding Chain: A: PDB Molecule:major antigenic peptide peb3; PDBTitle: crystal structure of l-phospholactate bound peb3 46 c2dvzA_ not modelled 94.6 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 47 c3rpwA_ not modelled 94.6 12 PDB header:transport protein Chain: A: PDB Molecule:abc transporter; PDBTitle: the crystal structure of an abc transporter from rhodopseudomonas2 palustris cga009 48 c2zzxD_ not modelled 93.8 15 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 49 c3fxbB_ not modelled 93.7 13 PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha 50 c3b50A_ not modelled 93.7 17 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. 51 c3kn3C_ not modelled 93.2 9 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 52 d2fyia1 not modelled 93.1 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 53 c2qpqC_ not modelled 93.0 15 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 54 c3c9hB_ not modelled 92.3 8 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 55 c3kzgB_ not modelled 92.0 11 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 56 c1al3A_ not modelled 90.8 17 PDB header:transcription regulation Chain: A: PDB Molecule:cys regulon transcriptional activator cysb; PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes 57 d1al3a_ not modelled 90.8 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 58 c3k4uA_ not modelled 90.7 12 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 59 c2f7cA_ not modelled 89.9 16 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: catm effector binding domain with its effector cis,cis-muconate 60 d1i6aa_ not modelled 88.8 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 61 d2esna2 not modelled 88.7 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 62 c2h9bB_ not modelled 88.1 18 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) 63 c2h9qC_ not modelled 87.4 16 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) 64 c2f78A_ not modelled 86.9 18 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator benm; PDBTitle: benm effector binding domain with its effector benzoate 65 c3jv9B_ not modelled 86.5 14 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: the structure of a reduced form of oxyr from n. meningitidis 66 c2hzkB_ not modelled 86.1 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 67 c3oxnD_ not modelled 86.1 8 PDB header:transcription regulator Chain: D: PDB Molecule:putative transcriptional regulator, lysr family; PDBTitle: the crystal structure of a putative transcriptional regulator from2 vibrio parahaemolyticus 68 c3ho7A_ not modelled 86.1 14 PDB header:transcription Chain: A: PDB Molecule:oxyr; PDBTitle: crystal structure of oxyr from porphyromonas gingivalis 69 c2ql3G_ not modelled 83.9 20 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 70 c2q2aD_ not modelled 83.6 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 71 c3n6uA_ not modelled 83.6 16 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 72 c3mplA_ not modelled 80.7 14 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) 73 c2hxrA_ not modelled 80.1 9 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 74 d1ixca2 not modelled 78.9 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 75 d1utha_ not modelled 78.4 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 76 c2uyeA_ not modelled 77.3 15 PDB header:transcription Chain: A: PDB Molecule:regulatory protein; PDBTitle: double mutant y110s,f111v dntr from burkholderia sp. strain2 dnt in complex with thiocyanate 77 c3osqA_ not modelled 77.2 9 PDB header:fluorescent protein, transport protein Chain: A: PDB Molecule:maltose-binding periplasmic protein, green fluorescent PDBTitle: maltose-bound maltose sensor engineered by insertion of circularly2 permuted green fluorescent protein into e. coli maltose binding3 protein at position 175 78 c3dm0A_ not modelled 76.3 9 PDB header:sugar binding protein,signaling protein Chain: A: PDB Molecule:maltose-binding periplasmic protein fused with PDBTitle: maltose binding protein fusion with rack1 from a. thaliana 79 d1vr5a1 not modelled 73.0 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 80 c3tpaA_ 72.2 13 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 81 d1dpea_ not modelled 71.4 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 82 c3pamB_ not modelled 70.7 9 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 83 c2pyyB_ not modelled 69.2 11 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 84 d3bula2 not modelled 69.0 10 Fold:Flavodoxin-like Superfamily:Cobalamin (vitamin B12)-binding domain Family:Cobalamin (vitamin B12)-binding domain 85 c2yxbA_ not modelled 68.8 16 PDB header:isomerase Chain: A: PDB Molecule:coenzyme b12-dependent mutase; PDBTitle: crystal structure of the methylmalonyl-coa mutase alpha-subunit from2 aeropyrum pernix 86 c2xx7B_ not modelled 68.6 19 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. 87 c1f7uA_ not modelled 68.4 19 PDB header:ligase/rna Chain: A: PDB Molecule:arginyl-trna synthetase; PDBTitle: crystal structure of the arginyl-trna synthetase complexed with the2 trna(arg) and l-arg 88 d1ii5a_ not modelled 67.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 89 c3ombA_ not modelled 66.3 11 PDB header:transport protein Chain: A: PDB Molecule:extracellular solute-binding protein, family 1; PDBTitle: crystal structure of extracellular solute-binding protein from2 bifidobacterium longum subsp. infantis 90 c3lvuB_ not modelled 66.2 13 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 91 c1y4cA_ not modelled 66.0 9 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 92 c3fd3A_ not modelled 65.5 6 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. 93 c2zufA_ not modelled 65.2 15 PDB header:ligase/rna Chain: A: PDB Molecule:arginyl-trna synthetase; PDBTitle: crystal structure of pyrococcus horikoshii arginyl-trna2 synthetase complexed with trna(arg) 94 c3onmB_ not modelled 64.6 25 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator lrha; PDBTitle: effector binding domain of lysr-type transcription factor rovm from y.2 pseudotuberculosis 95 c3ob4A_ not modelled 64.5 10 PDB header:allergen Chain: A: PDB Molecule:maltose abc transporter periplasmic protein, arah 2; PDBTitle: mbp-fusion protein of the major peanut allergen ara h 2 96 c1ztyA_ not modelled 63.5 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 97 c2o1mB_ not modelled 63.4 12 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 98 d1a9xa2 not modelled 63.3 19 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain 99 c3eq1A_ not modelled 62.6 13 PDB header:transferase Chain: A: PDB Molecule:porphobilinogen deaminase; PDBTitle: the crystal structure of human porphobilinogen deaminase at2 2.8a resolution 100 c2o7jA_ not modelled 62.2 17 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 101 d1pdaa1 not modelled 62.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 102 c3m8uA_ not modelled 61.9 13 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) 103 c1twyG_ not modelled 58.9 8 PDB header:structural genomics, unknown function Chain: G: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of an abc-type phosphate transport receptor from2 vibrio cholerae 104 d1twya_ not modelled 58.9 8 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 105 c2yvqA_ not modelled 56.9 19 PDB header:ligase Chain: A: PDB Molecule:carbamoyl-phosphate synthase; PDBTitle: crystal structure of mgs domain of carbamoyl-phosphate2 synthetase from homo sapiens 106 c2pt1A_ not modelled 55.1 7 PDB header:metal transport Chain: A: PDB Molecule:iron transport protein; PDBTitle: futa1 synechocystis pcc 6803 107 c2k89A_ not modelled 54.4 16 PDB header:protein binding Chain: A: PDB Molecule:phospholipase a-2-activating protein; PDBTitle: solution structure of a novel ubiquitin-binding domain from2 human plaa (pfuc, gly76-pro77 cis isomer) 108 c1svxB_ not modelled 54.3 9 PDB header:de novo protein/sugar binding protein Chain: B: PDB Molecule:maltose-binding periplasmic protein; PDBTitle: crystal structure of a designed selected ankyrin repeat2 protein in complex with the maltose binding protein 109 d1xoca1 not modelled 54.3 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 110 c3ol4B_ not modelled 53.7 14 PDB header:unknown function Chain: B: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of a putative uncharacterized protein from2 mycobacterium smegmatis, an ortholog of rv0543c 111 c3o3uN_ not modelled 53.7 8 PDB header:transport protein, signaling protein Chain: N: PDB Molecule:maltose-binding periplasmic protein, advanced glycosylation PDBTitle: crystal structure of human receptor for advanced glycation endproducts2 (rage) 112 d1f7ua2 not modelled 52.6 19 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Class I aminoacyl-tRNA synthetases (RS), catalytic domain 113 c2vgqA_ not modelled 50.5 8 PDB header:immune system/transport Chain: A: PDB Molecule:maltose-binding periplasmic protein, PDBTitle: crystal structure of human ips-1 card 114 c2nvuB_ not modelled 50.2 9 PDB header:protein turnover, ligase Chain: B: PDB Molecule:maltose binding protein/nedd8-activating enzyme PDBTitle: structure of appbp1-uba3~nedd8-nedd8-mgatp-ubc12(c111a), a2 trapped ubiquitin-like protein activation complex 115 d1dtza1 not modelled 49.9 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 116 c1r6zA_ not modelled 49.6 9 PDB header:gene regulation Chain: A: PDB Molecule:chimera of maltose-binding periplasmic protein and PDBTitle: the crystal structure of the argonaute2 paz domain (as a mbp fusion) 117 c3osrA_ not modelled 48.4 9 PDB header:fluorescent protein, transport protein Chain: A: PDB Molecule:maltose-binding periplasmic protein, green fluorescent PDBTitle: maltose-bound maltose sensor engineered by insertion of circularly2 permuted green fluorescent protein into e. coli maltose binding3 protein at position 311 118 d1s50a1 not modelled 48.3 7 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 119 d1zlqa1 not modelled 47.9 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 120 c1iq0A_ not modelled 47.0 15 PDB header:ligase Chain: A: PDB Molecule:arginyl-trna synthetase; PDBTitle: thermus thermophilus arginyl-trna synthetase

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