Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	K	V	L	I	A	A	L	I	A	G	F	S	L	S	A	T	A	A	E	T	I	R	F	A	T	E	A	S	Y	P	P	F	E	S	I	D	A	N	N	Q	I	V	G	F	D	V	D	L	A	Q	A	L	C	K	E	I	D	A
Secondary structure
SS confidence
Disorder		?													?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	C	T	F	S	N	Q	A	F	D	S	L	I	P	S	L	K	F	R	R	V	E	A	V	M	A	G	M	D	I	T	P	E	R	E	K	Q	V	L	F	T	T	P	Y	Y	D	N	S	A	L	F	V	G	Q	Q	G	K	Y	T	S
Secondary structure
SS confidence
Disorder																																																									?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	D	Q	L	K	G	K	K	V	G	V	Q	N	G	T	T	H	Q	K	F	I	M	D	K	H	P	E	I	T	T	V	P	Y	D	S	Y	Q	N	A	K	L	D	L	Q	N	G	R	I	D	G	V	F	G	D	T	A	V	V	T	E
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	L	K	D	N	P	K	L	A	A	V	G	D	K	V	T	D	K	D	Y	F	G	T	G	L	G	I	A	V	R	Q	G	N	T	E	L	Q	Q	K	L	N	T	A	L	E	K	V	K	K	D	G	T	Y	E	T	I	Y	N	K	W
Secondary structure
SS confidence
Disorder																		?	?	?	?	?	?
Disorder confidence
		.	.	.
Sequence		F	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 2y7i chain B Region: 20 - 243 Aligned: 224 Modelled: 223 Confidence: 100.0% Identity: 54% PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. Phyre2 PDB 2yln chain A Region: 17 - 243 Aligned: 226 Modelled: 227 Confidence: 100.0% Identity: 23% 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 Phyre2 PDB 3g41 chain A Region: 20 - 243 Aligned: 223 Modelled: 224 Confidence: 100.0% Identity: 29% 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 Phyre2 PDB 1hsl chain A Region: 18 - 243 Aligned: 226 Modelled: 226 Confidence: 100.0% Identity: 37% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3k4u chain A Region: 20 - 243 Aligned: 221 Modelled: 211 Confidence: 100.0% Identity: 25% 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 Phyre2 PDB 3kzg chain B Region: 22 - 241 Aligned: 220 Modelled: 219 Confidence: 100.0% Identity: 32% 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 Phyre2 PDB 3i6v chain A Region: 22 - 243 Aligned: 213 Modelled: 219 Confidence: 100.0% Identity: 29% 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 Phyre2 PDB 3hv1 chain A Region: 18 - 243 Aligned: 224 Modelled: 226 Confidence: 100.0% Identity: 27% 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 Phyre2 PDB 2iee chain B Region: 18 - 243 Aligned: 223 Modelled: 226 Confidence: 100.0% Identity: 21% 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. Phyre2 PDB 3del chain C Region: 21 - 243 Aligned: 222 Modelled: 223 Confidence: 100.0% Identity: 27% 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 Phyre2 PDB 1lst chain A Region: 18 - 243 Aligned: 226 Modelled: 226 Confidence: 100.0% Identity: 32% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2o1m chain B Region: 20 - 243 Aligned: 219 Modelled: 220 Confidence: 100.0% Identity: 22% 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 Phyre2 PDB 2q2a chain D Region: 14 - 243 Aligned: 227 Modelled: 230 Confidence: 100.0% Identity: 28% 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 Phyre2 PDB 3h7m chain A Region: 20 - 242 Aligned: 220 Modelled: 223 Confidence: 100.0% Identity: 22% PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of a histidine kinase sensor domain with2 similarity to periplasmic binding proteins Phyre2 PDB 1wdn chain A Region: 22 - 242 Aligned: 217 Modelled: 221 Confidence: 100.0% Identity: 31% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3r39 chain A Region: 16 - 243 Aligned: 222 Modelled: 228 Confidence: 100.0% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica Phyre2 PDB 3kbr chain A Region: 17 - 241 Aligned: 220 Modelled: 225 Confidence: 100.0% Identity: 19% PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 Phyre2 PDB 2q89 chain A Region: 17 - 242 Aligned: 224 Modelled: 226 Confidence: 100.0% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter amino acid-binding protein; PDBTitle: crystal structure of ehub in complex with hydroxyectoine Phyre2 PDB 2vha chain B Region: 17 - 243 Aligned: 225 Modelled: 227 Confidence: 100.0% Identity: 17% PDB header:transport protein Chain: B: PDB Molecule:periplasmic binding transport protein; PDBTitle: debp Phyre2 PDB 1xt8 chain B Region: 18 - 243 Aligned: 222 Modelled: 226 Confidence: 100.0% Identity: 25% PDB header:transport protein Chain: B: PDB Molecule:putative amino-acid transporter periplasmic solute-binding PDBTitle: crystal structure of cysteine-binding protein from campylobacter2 jejuni at 2.0 a resolution Phyre2 1 c2y7iB_ 2 c2ylnA_ 3 c3g41A_ 4 d1hsla_ 5 c3k4uA_ 6 c3kzgB_ 7 c3i6vA_ 8 c3hv1A_ 9 c2ieeB_ 10 c3delC_ 11 d1lsta_ 12 c2o1mB_ 13 c2q2aD_ 14 c3h7mA_ 15 d1wdna_ 16 c3r39A_ 17 c3kbrA_ 18 c2q89A_ 19 c2vhaB_ 20 c1xt8B_ 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

Detailed template information

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

1 c2y7iB_ 100.0 54 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 2 c2ylnA_ 100.0 23 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 3 c3g41A_ 100.0 29 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 4 d1hsla_ 100.0 37 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 5 c3k4uA_ 100.0 25 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 6 c3kzgB_ 100.0 32 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 7 c3i6vA_ 100.0 29 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 8 c3hv1A_ 100.0 27 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 9 c2ieeB_ 100.0 21 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. 10 c3delC_ 100.0 27 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 11 d1lsta_ 100.0 32 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 12 c2o1mB_ 100.0 22 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 13 c2q2aD_ 100.0 28 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 14 c3h7mA_ 100.0 22 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of a histidine kinase sensor domain with2 similarity to periplasmic binding proteins 15 d1wdna_ 100.0 31 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 16 c3r39A_ 100.0 22 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 17 c3kbrA_ 100.0 19 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 18 c2q89A_ 100.0 22 PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter amino acid-binding protein; PDBTitle: crystal structure of ehub in complex with hydroxyectoine 19 c2vhaB_ 100.0 17 PDB header:transport protein Chain: B: PDB Molecule:periplasmic binding transport protein; PDBTitle: debp 20 c1xt8B_ 100.0 25 PDB header:transport protein Chain: B: PDB Molecule:putative amino-acid transporter periplasmic solute-binding PDBTitle: crystal structure of cysteine-binding protein from campylobacter2 jejuni at 2.0 a resolution 21 d1xt8a1 not modelled 100.0 24 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 22 d2a5sa1 not modelled 100.0 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 23 c2yjpB_ not modelled 100.0 27 PDB header:transport protein Chain: B: PDB Molecule:putative abc transporter, periplasmic binding protein, PDBTitle: crystal structure of the solute receptors for l-cysteine of2 neisseria gonorrhoeae 24 c3mplA_ not modelled 100.0 17 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) 25 c2v25B_ not modelled 100.0 19 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 26 d1mqia_ not modelled 100.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 27 d1ii5a_ not modelled 100.0 19 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 28 c2pyyB_ not modelled 100.0 25 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 29 c2xx7B_ not modelled 100.0 20 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. 30 d1pb7a_ not modelled 100.0 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 31 c2rc9A_ not modelled 100.0 16 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 32 d1s50a1 not modelled 99.9 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 33 d2f34a1 not modelled 99.9 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 34 c2v3tA_ not modelled 99.9 19 PDB header:receptor Chain: A: PDB Molecule:glutamate receptor delta-2 subunit synonym PDBTitle: structure of the ligand-binding core of the ionotropic2 glutamate receptor-like glurdelta2 in the apo form 35 c1yaeB_ not modelled 99.9 15 PDB header:membrane protein Chain: B: PDB Molecule:glutamate receptor, ionotropic kainate 2; PDBTitle: structure of the kainate receptor subunit glur6 agonist binding domain2 complexed with domoic acid 36 c3kg2A_ not modelled 99.8 19 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:glutamate receptor 2; PDBTitle: ampa subtype ionotropic glutamate receptor in complex with competitive2 antagonist zk 200775 37 c3n5lA_ not modelled 98.7 12 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 38 c3ix1B_ not modelled 98.3 10 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 39 c3ix1A_ not modelled 98.3 10 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 40 c3k2dA_ not modelled 98.2 12 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 41 c2x26A_ not modelled 98.2 14 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 42 c3e4rA_ not modelled 98.1 14 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 43 c3uifA_ not modelled 98.1 17 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 44 c3tqwA_ not modelled 98.0 15 PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii 45 d1xs5a_ not modelled 97.8 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 46 c2x7pA_ not modelled 97.8 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 47 c1p99A_ not modelled 97.8 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus 48 d1p99a_ not modelled 97.8 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 49 c3l6gA_ not modelled 97.8 11 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 50 c3gxaA_ not modelled 97.7 12 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 51 c3hn0A_ not modelled 97.6 8 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 52 c3qslA_ not modelled 97.6 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 53 c3un6A_ not modelled 97.4 11 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 54 d1zbma1 not modelled 97.4 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 55 c3tmgA_ not modelled 97.2 12 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 56 d2czla1 not modelled 97.2 8 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 57 c3ir1F_ not modelled 97.2 11 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 58 c2de4B_ not modelled 96.2 17 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 59 c2g29A_ not modelled 95.8 9 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 60 d1us5a_ not modelled 95.4 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 61 c2pfzA_ not modelled 94.6 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 62 c3b50A_ not modelled 94.3 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. 63 c2rejA_ not modelled 94.3 17 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 64 c2f5xC_ not modelled 93.8 18 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 65 c3fxbB_ not modelled 93.5 14 PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha 66 d2nxoa1 not modelled 93.4 8 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 67 c2i4cA_ not modelled 92.8 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 68 c2vpnB_ not modelled 92.8 18 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 69 c3lr1A_ not modelled 92.7 10 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 70 c3gyyC_ not modelled 91.7 18 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 71 c2hpgB_ not modelled 91.5 13 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 72 c2dvzA_ not modelled 91.5 17 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 73 c2pfyA_ not modelled 90.7 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 74 c3r6uA_ not modelled 89.9 13 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 75 c2qpqC_ not modelled 89.4 18 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 76 c3muqB_ not modelled 87.8 10 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 77 d1atga_ not modelled 86.0 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 78 d1amfa_ not modelled 84.6 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 79 d1pdaa1 not modelled 83.0 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 80 d2ozza1 not modelled 81.6 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 81 c2zzxD_ not modelled 81.5 11 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 82 c3jv9B_ not modelled 80.7 11 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: the structure of a reduced form of oxyr from n. meningitidis 83 d2esna2 not modelled 80.4 7 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 84 c3fj7A_ not modelled 80.0 13 PDB header:protein binding Chain: A: PDB Molecule:major antigenic peptide peb3; PDBTitle: crystal structure of l-phospholactate bound peb3 85 c3chgB_ not modelled 77.6 4 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 86 c2ypnA_ not modelled 74.3 14 PDB header:transferase Chain: A: PDB Molecule:protein (hydroxymethylbilane synthase); PDBTitle: hydroxymethylbilane synthase 87 c2hzkB_ not modelled 72.2 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 88 c2ql3G_ not modelled 68.6 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 89 c3eq1A_ not modelled 67.9 14 PDB header:transferase Chain: A: PDB Molecule:porphobilinogen deaminase; PDBTitle: the crystal structure of human porphobilinogen deaminase at2 2.8a resolution 90 c2h5yC_ not modelled 66.1 10 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 91 c3kn3C_ not modelled 64.4 6 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 92 c1twyG_ not modelled 57.7 14 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 93 d1twya_ not modelled 57.7 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 94 c1nh7A_ not modelled 54.8 14 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: atp phosphoribosyltransferase (atp-prtase) from mycobacterium2 tuberculosis 95 d1h3da1 not modelled 54.6 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 96 c2vd3B_ not modelled 47.2 13 PDB header:transferase Chain: B: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the structure of histidine inhibited hisg from2 methanobacterium thermoautotrophicum 97 c1jvnB_ not modelled 46.8 17 PDB header:transferase Chain: B: PDB Molecule:bifunctional histidine biosynthesis protein hishf; PDBTitle: crystal structure of imidazole glycerol phosphate synthase: a tunnel2 through a (beta/alpha)8 barrel joins two active sites 98 c3mstA_ not modelled 44.5 5 PDB header:transport protein Chain: A: PDB Molecule:putative nitrate transport protein; PDBTitle: crystal structure of a putative nitrate transport protein (tvn0104)2 from thermoplasma volcanium at 1.35 a resolution 99 d1eh3a_ not modelled 44.3 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 100 c2esnC_ not modelled 41.5 8 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 101 c3ho7A_ not modelled 41.5 9 PDB header:transcription Chain: A: PDB Molecule:oxyr; PDBTitle: crystal structure of oxyr from porphyromonas gingivalis 102 c2h9qC_ not modelled 41.3 11 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) 103 d2i6ea1 not modelled 39.8 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 104 c1q1kA_ not modelled 38.5 11 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: structure of atp-phosphoribosyltransferase from e. coli complexed with2 pr-atp 105 d1nh8a1 not modelled 38.2 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 106 d1i6aa_ not modelled 37.4 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 107 c2i6eG_ not modelled 33.5 10 PDB header:structural genomics, unknown function Chain: G: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of protein dr0370 from deinococcus radiodurans, pfam2 duf178 108 c2f7cA_ not modelled 32.7 11 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: catm effector binding domain with its effector cis,cis-muconate 109 d1h76a1 not modelled 32.5 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Transferrin 110 c3pamB_ not modelled 30.6 5 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-1 111 d1z7me1 not modelled 30.3 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 112 d1jvna1 not modelled 29.0 17 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Histidine biosynthesis enzymes 113 c3lvuB_ not modelled 28.2 0 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 114 c2hxrA_ not modelled 25.1 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 115 c2d5wA_ not modelled 25.0 12 PDB header:peptide binding protein Chain: A: PDB Molecule:peptide abc transporter, peptide-binding protein; PDBTitle: the crystal structure of oligopeptide binding protein from thermus2 thermophilus hb8 complexed with pentapeptide 116 c3dtfB_ not modelled 24.5 13 PDB header:transferase Chain: B: PDB Molecule:branched-chain amino acid aminotransferase; PDBTitle: structural analysis of mycobacterial branched chain aminotransferase-2 implications for inhibitor design 117 d1r9la_ not modelled 23.8 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 118 d1ve4a1 not modelled 22.8 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 119 d1sw5a_ not modelled 22.1 8 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 120 c2o7jA_ not modelled 21.1 4 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

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