Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	L	R	S	V	T	Y	A	L	F	I	A	G	L	A	A	F	S	T	S	S	L	A	A	Q	S	L	R	F	G	Y	E	T	S	Q	T	D	S	Q	H	I	A	A	K	K	F	N	D	L	L	Q	E	R	T	K	G	E	L	K
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	K	L	F	P	D	S	T	L	G	N	A	Q	A	M	I	S	G	V	R	G	G	T	I	D	M	E	M	S	G	S	N	N	F	A	G	L	S	P	V	M	N	L	L	D	V	P	F	L	F	R	D	T	A	H	A	H	K	T	L
Secondary structure
SS confidence
Disorder									?																					?			?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	G	K	V	G	D	D	L	K	A	S	L	E	G	K	G	L	K	V	L	A	Y	W	E	N	G	W	R	D	V	T	N	S	R	A	P	V	K	T	P	A	D	L	K	G	L	K	I	R	T	N	N	S	P	M	N	I	A	A	F
Secondary structure
SS confidence
Disorder																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	V	F	G	A	N	P	I	P	M	P	F	A	E	V	Y	T	G	L	E	T	R	T	I	D	A	Q	E	H	P	I	N	V	V	W	S	A	K	F	F	E	V	Q	K	F	L	S	L	T	H	H	A	Y	S	P	L	L	V	V	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		N	K	A	K	F	D	G	L	S	P	E	F	Q	Q	A	L	V	S	S	A	Q	E	A	G	N	Y	Q	R	K	L	V	A	E	D	Q	Q	K	I	I	D	G	M	K	E	A	G	V	E	V	I	T	D	L	D	R	K	A	F	S	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.
Sequence		A	L	G	N	Q	V	R	D	M	F	V	K	D	V	P	Q	G	A	D	L	L	K	A	V	D	E	V	Q
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 2pfy chain A Region: 25 - 326 Aligned: 299 Modelled: 302 Confidence: 100.0% Identity: 21% 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 Phyre2 PDB 3b50 chain A Region: 24 - 328 Aligned: 303 Modelled: 305 Confidence: 100.0% Identity: 30% 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. Phyre2 PDB 2pfz chain A Region: 26 - 326 Aligned: 298 Modelled: 301 Confidence: 100.0% Identity: 22% 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 Phyre2 PDB 3fxb chain B Region: 26 - 327 Aligned: 299 Modelled: 302 Confidence: 100.0% Identity: 28% PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha Phyre2 PDB 2vpn chain B Region: 26 - 327 Aligned: 299 Modelled: 302 Confidence: 100.0% Identity: 24% 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 Phyre2 PDB 2hzk chain B Region: 25 - 328 Aligned: 301 Modelled: 301 Confidence: 100.0% Identity: 19% 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 Phyre2 PDB 2hpg chain B Region: 23 - 325 Aligned: 301 Modelled: 303 Confidence: 100.0% Identity: 25% 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 Phyre2 PDB 2zzx chain D Region: 26 - 327 Aligned: 299 Modelled: 302 Confidence: 100.0% Identity: 20% 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 Phyre2 PDB 3gyy chain C Region: 26 - 327 Aligned: 297 Modelled: 302 Confidence: 100.0% Identity: 24% 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 Phyre2 PDB 3uif chain A Region: 26 - 279 Aligned: 217 Modelled: 218 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 2x26 chain A Region: 24 - 282 Aligned: 216 Modelled: 226 Confidence: 99.5% 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 3e4r chain A Region: 22 - 282 Aligned: 221 Modelled: 223 Confidence: 99.4% Identity: 15% 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 2x7p chain A Region: 27 - 300 Aligned: 225 Modelled: 241 Confidence: 99.2% Identity: 10% 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 3qsl chain A Region: 27 - 278 Aligned: 213 Modelled: 214 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 3ix1 chain B Region: 24 - 305 Aligned: 242 Modelled: 249 Confidence: 99.2% Identity: 14% 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 3ix1 chain A Region: 24 - 305 Aligned: 242 Modelled: 249 Confidence: 99.2% Identity: 14% 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: 28 - 282 Aligned: 210 Modelled: 220 Confidence: 99.1% Identity: 16% 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: 25 - 280 Aligned: 216 Modelled: 211 Confidence: 99.1% Identity: 16% 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 3hn0 chain A Region: 26 - 280 Aligned: 206 Modelled: 214 Confidence: 99.0% Identity: 9% 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 1us5 chain A Region: 24 - 210 Aligned: 159 Modelled: 164 Confidence: 99.0% Identity: 18% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 1 c2pfyA_ 2 c3b50A_ 3 c2pfzA_ 4 c3fxbB_ 5 c2vpnB_ 6 c2hzkB_ 7 c2hpgB_ 8 c2zzxD_ 9 c3gyyC_ 10 c3uifA_ 11 c2x26A_ 12 c3e4rA_ 13 c2x7pA_ 14 c3qslA_ 15 c3ix1B_ 16 c3ix1A_ 17 c2de4B_ 18 c3un6A_ 19 c3hn0A_ 20 d1us5a_ 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

Detailed template information

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

1 c2pfyA_ 100.0 21 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 2 c3b50A_ 100.0 30 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. 3 c2pfzA_ 100.0 22 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 4 c3fxbB_ 100.0 28 PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha 5 c2vpnB_ 100.0 24 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 6 c2hzkB_ 100.0 19 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 7 c2hpgB_ 100.0 25 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 8 c2zzxD_ 100.0 20 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 9 c3gyyC_ 100.0 24 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 10 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 11 c2x26A_ 99.5 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 12 c3e4rA_ 99.4 15 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 13 c2x7pA_ 99.2 10 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 14 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 15 c3ix1B_ 99.2 14 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 16 c3ix1A_ 99.2 14 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 17 c2de4B_ 99.1 16 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 18 c3un6A_ 99.1 16 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 19 c3hn0A_ 99.0 9 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 d1us5a_ 99.0 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 21 d1p99a_ not modelled 98.9 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 22 c1p99A_ not modelled 98.9 17 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 c3n5lA_ not modelled 98.8 15 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 24 c3gxaA_ not modelled 98.8 16 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 25 c2g29A_ not modelled 98.8 14 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 26 c3k2dA_ not modelled 98.8 16 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 c3tmgA_ not modelled 98.8 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 28 d1xs5a_ not modelled 98.8 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 29 d2czla1 not modelled 98.7 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 30 c2i4cA_ not modelled 98.7 17 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 31 d1zbma1 not modelled 98.6 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 32 c2qpqC_ not modelled 98.6 9 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 33 c3tqwA_ not modelled 98.5 19 PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii 34 c3l6gA_ not modelled 98.5 14 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 35 d2nxoa1 not modelled 98.4 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 36 c3ir1F_ not modelled 98.3 17 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 37 c2dvzA_ not modelled 98.2 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 38 c2f5xC_ not modelled 98.2 11 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 39 c1q1kA_ not modelled 97.1 16 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: structure of atp-phosphoribosyltransferase from e. coli complexed with2 pr-atp 40 c3r6uA_ not modelled 97.1 16 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 41 d2a5sa1 not modelled 97.1 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 42 c2rejA_ not modelled 96.9 14 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 43 d1h3da1 not modelled 96.9 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 44 c3kzgB_ not modelled 96.8 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 45 c3pppA_ not modelled 96.8 14 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 46 c2rc9A_ not modelled 96.5 13 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 47 c2vd3B_ not modelled 96.5 13 PDB header:transferase Chain: B: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the structure of histidine inhibited hisg from2 methanobacterium thermoautotrophicum 48 c2o1mB_ not modelled 96.4 13 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 49 c3o66A_ not modelled 96.4 12 PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter 50 c2ylnA_ not modelled 96.3 19 PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter, periplasmic binding protein, PDBTitle: crystal structure of the l-cystine solute receptor of2 neisseria gonorrhoeae in the closed conformation 51 c1nh7A_ not modelled 96.3 18 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: atp phosphoribosyltransferase (atp-prtase) from mycobacterium2 tuberculosis 52 d1pb7a_ not modelled 96.1 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 53 d1sw5a_ not modelled 95.2 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 54 c2q2aD_ not modelled 95.1 15 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 55 d1z7me1 not modelled 94.1 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 56 d1nh8a1 not modelled 93.7 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 57 c2pyyB_ not modelled 92.8 13 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 58 c3k4uA_ not modelled 91.9 22 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 d1vmda_ not modelled 90.6 21 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA 60 c2ypnA_ not modelled 89.8 16 PDB header:transferase Chain: A: PDB Molecule:protein (hydroxymethylbilane synthase); PDBTitle: hydroxymethylbilane synthase 61 c3mplA_ not modelled 89.5 16 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) 62 d1lsta_ not modelled 89.2 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 63 d1ii5a_ not modelled 88.7 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 64 c2y7iB_ not modelled 88.6 16 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 65 d2ozza1 not modelled 87.2 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 66 d1pdaa1 not modelled 86.5 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 67 c3r39A_ not modelled 85.6 12 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 68 d1ve4a1 not modelled 85.1 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 69 d1r9la_ not modelled 84.5 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 70 c2vd2A_ not modelled 83.3 10 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the crystal structure of hisg from b. subtilis 71 c3eq1A_ not modelled 82.7 14 PDB header:transferase Chain: A: PDB Molecule:porphobilinogen deaminase; PDBTitle: the crystal structure of human porphobilinogen deaminase at2 2.8a resolution 72 d1b1xa1 not modelled 82.3 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 73 c3lr1A_ not modelled 81.9 17 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 74 c3g41A_ not modelled 80.9 14 PDB header:transport protein Chain: A: PDB Molecule:amino acid abc transporter, periplasmic amino acid-binding PDBTitle: the structure of cpn0482, the arginine binding protein from the2 periplasm of chlamydia pneumoniae 75 c3kn3C_ not modelled 80.7 19 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 76 c1y4cA_ not modelled 79.9 14 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 77 d1b93a_ not modelled 78.8 15 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA 78 d1eh3a_ not modelled 78.1 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 79 d1o63a_ not modelled 78.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 80 d1hsla_ not modelled 77.0 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 81 c2v25B_ not modelled 76.6 15 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 82 d1ryoa_ not modelled 76.2 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 83 c3luyA_ not modelled 73.5 14 PDB header:isomerase Chain: A: PDB Molecule:probable chorismate mutase; PDBTitle: putative chorismate mutase from bifidobacterium adolescentis 84 d1dtza1 not modelled 72.8 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 85 d1sbpa_ not modelled 71.8 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 86 c3delC_ not modelled 70.7 13 PDB header:protein binding, transport protein Chain: C: PDB Molecule:arginine binding protein; PDBTitle: the structure of ct381, the arginine binding protein from the2 periplasm chlamydia trachomatis 87 d2i6ea1 not modelled 69.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 88 d1wo8a1 not modelled 68.5 16 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Methylglyoxal synthase, MgsA 89 c3hv1A_ not modelled 65.9 15 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 90 c2z8fB_ not modelled 63.2 9 PDB header:sugar binding protein Chain: B: PDB Molecule:galacto-n-biose/lacto-n-biose i transporter substrate- PDBTitle: the galacto-n-biose-/lacto-n-biose i-binding protein (gl-bp) of the2 abc transporter from bifidobacterium longum in complex with lacto-n-3 tetraose 91 c2i6eG_ not modelled 58.3 12 PDB header:structural genomics, unknown function Chain: G: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein dr0370 from deinococcus radiodurans, pfam2 duf178 92 d2qmwa1 not modelled 56.8 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 93 c3h7mA_ not modelled 56.2 12 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of a histidine kinase sensor domain with2 similarity to periplasmic binding proteins 94 c3c4mA_ not modelled 55.6 16 PDB header:membrane protein Chain: A: PDB Molecule:fusion protein of maltose-binding periplasmic protein and PDBTitle: structure of human parathyroid hormone in complex with the2 extracellular domain of its g-protein-coupled receptor (pth1r) 95 c3kbrA_ not modelled 55.0 10 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 96 c3ob4A_ not modelled 54.8 14 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 97 d1tfda_ not modelled 54.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 98 c1hsjA_ not modelled 53.8 13 PDB header:transcription/sugar binding protein Chain: A: PDB Molecule:fusion protein consisting of staphylococcus PDBTitle: sarr mbp fusion structure 99 d1y9ba1 not modelled 53.8 16 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:VCA0319-like 100 d2hava1 not modelled 53.3 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 101 c3oaiB_ not modelled 51.0 14 PDB header:membrane protein, cell adhesion Chain: B: PDB Molecule:maltose-binding periplasmic protein, myelin protein p0; PDBTitle: crystal structure of the extra-cellular domain of human myelin protein2 zero 102 c1r6zA_ not modelled 48.9 14 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) 103 c2h9bB_ not modelled 48.5 15 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) 104 c3osrA_ not modelled 48.3 15 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 311 105 c3muqB_ not modelled 47.8 15 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 106 c3d4cA_ not modelled 46.6 14 PDB header:cell adhesion Chain: A: PDB Molecule:maltose-binding periplasmic protein, linker, zona pellucida PDBTitle: zp-n domain of mammalian sperm receptor zp3 (crystal form i) 107 d1ieja_ not modelled 45.8 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 108 c3f5fA_ not modelled 45.2 13 PDB header:transport, transferase Chain: A: PDB Molecule:maltose-binding periplasmic protein, heparan PDBTitle: crystal structure of heparan sulfate 2-o-sulfotransferase2 from gallus gallus as a maltose binding protein fusion. 109 d1jnfa1 not modelled 44.8 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 110 d1wdna_ not modelled 44.0 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 111 d1h76a1 not modelled 42.3 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 112 c2qmwA_ not modelled 42.2 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:prephenate dehydratase; PDBTitle: the crystal structure of the prephenate dehydratase (pdt) from2 staphylococcus aureus subsp. aureus mu50 113 c2ieeB_ not modelled 42.1 16 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:probable abc transporter extracellular-binding PDBTitle: crystal structure of yckb_bacsu from bacillus subtilis.2 northeast structural genomics consortium target sr574. 114 c3i6vA_ not modelled 41.7 8 PDB header:transport protein Chain: A: PDB Molecule:periplasmic his/glu/gln/arg/opine family-binding protein; PDBTitle: crystal structure of a periplasmic his/glu/gln/arg/opine family-2 binding protein from silicibacter pomeroyi in complex with lysine 115 c2q89A_ not modelled 40.8 13 PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter amino acid-binding protein; PDBTitle: crystal structure of ehub in complex with hydroxyectoine 116 d2iiza1 not modelled 39.5 14 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Dyp-type peroxidase-like 117 c3fj7A_ not modelled 39.4 13 PDB header:protein binding Chain: A: PDB Molecule:major antigenic peptide peb3; PDBTitle: crystal structure of l-phospholactate bound peb3 118 c3fd3A_ not modelled 38.0 14 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. 119 c2vgqA_ not modelled 37.8 14 PDB header:immune system/transport Chain: A: PDB Molecule:maltose-binding periplasmic protein, PDBTitle: crystal structure of human ips-1 card 120 d1pc3a_ not modelled 36.9 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like

Binding site prediction

Due to computational demand, binding site predictions are not run for batch jobs

If you want to predict binding sites, please manually submit your model of choice to 3DLigandSite

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Phyre is for academic use only

Please cite: Protein structure prediction on the web: a case study using the Phyre server
Kelley LA and Sternberg MJE. Nature Protocols 4, 363 - 371 (2009) [pdf] [Import into BibTeX]
If you use the binding site predictions from 3DLigandSite, please also cite:
3DLigandSite: predicting ligand-binding sites using similar structures.
Wass MN, Kelley LA and Sternberg MJ Nucleic Acids Research 38, W469-73 (2010) [PubMed]
© Structural Bioinformatics Group Imperial College London Lawrence Kelley, Benjamin Jefferys Disclaimer Terms and Conditions	Component software Template detection: HHpred 1.51 Secondary structure prediction: Psi-pred 2.5 Disorder prediction: Disopred 2.4 Transmembrane prediction: Memsat_SVM Multi-template modelling and ab initio: Poing 1.0