Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	L	A	H	L	G	R	Q	A	L	M	G	V	M	A	V	A	L	V	A	G	M	S	V	K	S	F	A	D	E	G	L	L	N	K	V	K	E	R	G	T	L	L	V	G	L	E	G	T	Y	P	P	F	S	F	Q	G	D	D
Secondary structure
SS confidence
Disorder		?	?	?																				?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	K	L	T	G	F	E	V	E	F	A	Q	Q	L	A	K	H	L	G	V	E	A	S	L	K	P	T	K	W	D	G	M	L	A	S	L	D	S	K	R	I	D	V	V	I	N	Q	V	T	I	S	D	E	R	K	K	K	Y	D	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	T	P	Y	T	I	S	G	I	Q	A	L	V	K	K	G	N	E	G	T	I	K	T	A	D	D	L	K	G	K	K	V	G	V	G	L	G	T	N	Y	E	E	W	L	R	Q	N	V	Q	G	V	D	V	R	T	Y	D	D	D	P
Secondary structure
SS confidence
Disorder																				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		T	K	Y	Q	D	L	R	V	G	R	I	D	A	I	L	V	D	R	L	A	A	L	D	L	V	K	K	T	N	D	T	L	A	V	T	G	E	A	F	S	R	Q	E	S	G	V	A	L	R	K	G	N	E	D	L	L	K	A	V	N
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.
Sequence		D	A	I	A	E	M	Q	K	D	G	T	L	Q	A	L	S	E	K	W	F	G	A	D	V	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 2yln chain A Region: 30 - 265 Aligned: 233 Modelled: 236 Confidence: 100.0% Identity: 35% 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 3hv1 chain A Region: 25 - 265 Aligned: 241 Modelled: 241 Confidence: 100.0% Identity: 25% 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 3k4u chain A Region: 40 - 263 Aligned: 224 Modelled: 224 Confidence: 100.0% Identity: 31% 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 2iee chain B Region: 35 - 266 Aligned: 230 Modelled: 231 Confidence: 100.0% Identity: 32% 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 3g41 chain A Region: 39 - 265 Aligned: 226 Modelled: 227 Confidence: 100.0% Identity: 21% 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 3kbr chain A Region: 31 - 260 Aligned: 229 Modelled: 230 Confidence: 100.0% Identity: 26% PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 Phyre2 PDB 2o1m chain B Region: 39 - 262 Aligned: 223 Modelled: 224 Confidence: 100.0% Identity: 26% 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 2vha chain B Region: 27 - 265 Aligned: 239 Modelled: 239 Confidence: 100.0% Identity: 22% PDB header:transport protein Chain: B: PDB Molecule:periplasmic binding transport protein; PDBTitle: debp Phyre2 PDB 1hsl chain A Region: 40 - 264 Aligned: 225 Modelled: 225 Confidence: 100.0% Identity: 27% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3r39 chain A Region: 37 - 262 Aligned: 224 Modelled: 226 Confidence: 100.0% Identity: 24% 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 3i6v chain A Region: 42 - 265 Aligned: 215 Modelled: 224 Confidence: 100.0% Identity: 28% 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 1lst chain A Region: 40 - 265 Aligned: 226 Modelled: 226 Confidence: 100.0% Identity: 27% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1xt8 chain B Region: 28 - 265 Aligned: 236 Modelled: 238 Confidence: 100.0% Identity: 21% 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 PDB 3h7m chain A Region: 39 - 263 Aligned: 223 Modelled: 225 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: 42 - 266 Aligned: 223 Modelled: 224 Confidence: 100.0% Identity: 32% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3del chain C Region: 41 - 264 Aligned: 222 Modelled: 224 Confidence: 100.0% Identity: 21% 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 2yjp chain B Region: 32 - 261 Aligned: 228 Modelled: 230 Confidence: 100.0% Identity: 28% 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 Phyre2 PDB 2q89 chain A Region: 30 - 263 Aligned: 233 Modelled: 234 Confidence: 100.0% Identity: 29% 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 2y7i chain B Region: 40 - 261 Aligned: 220 Modelled: 222 Confidence: 100.0% Identity: 29% 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 1xt8 chain A domain 1 Region: 32 - 265 Aligned: 232 Modelled: 234 Confidence: 100.0% Identity: 22% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 1 c2ylnA_ 2 c3hv1A_ 3 c3k4uA_ 4 c2ieeB_ 5 c3g41A_ 6 c3kbrA_ 7 c2o1mB_ 8 c2vhaB_ 9 d1hsla_ 10 c3r39A_ 11 c3i6vA_ 12 d1lsta_ 13 c1xt8B_ 14 c3h7mA_ 15 d1wdna_ 16 c3delC_ 17 c2yjpB_ 18 c2q89A_ 19 c2y7iB_ 20 d1xt8a1 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

Detailed template information

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

1 c2ylnA_ 100.0 35 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 2 c3hv1A_ 100.0 25 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 3 c3k4uA_ 100.0 31 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 4 c2ieeB_ 100.0 32 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. 5 c3g41A_ 100.0 21 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 6 c3kbrA_ 100.0 26 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 7 c2o1mB_ 100.0 26 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 8 c2vhaB_ 100.0 22 PDB header:transport protein Chain: B: PDB Molecule:periplasmic binding transport protein; PDBTitle: debp 9 d1hsla_ 100.0 27 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 10 c3r39A_ 100.0 24 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 11 c3i6vA_ 100.0 28 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 12 d1lsta_ 100.0 27 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 13 c1xt8B_ 100.0 21 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 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 32 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 16 c3delC_ 100.0 21 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 17 c2yjpB_ 100.0 28 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 18 c2q89A_ 100.0 29 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 c2y7iB_ 100.0 29 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 20 d1xt8a1 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 21 c2q2aD_ not modelled 100.0 26 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 22 c3kzgB_ not modelled 100.0 27 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 23 c2v25B_ not modelled 100.0 28 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 24 c3mplA_ not modelled 100.0 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) 25 d1mqia_ not modelled 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 26 d2a5sa1 not modelled 100.0 21 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 27 c2xx7B_ not modelled 100.0 22 PDB header:transport protein Chain: B: PDB Molecule:glutamate receptor 2; PDBTitle: crystal structure of 1-(4-(1-pyrrolidinylcarbonyl)phenyl)-3-2 (trifluoromethyl)-4,5,6,7-tetrahydro-1h-indazole in complex with3 the ligand binding domain of the rat glua2 receptor and glutamate4 at 2.2a resolution. 28 d1ii5a_ not modelled 100.0 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 29 d1pb7a_ not modelled 100.0 24 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 30 d1s50a1 not modelled 99.9 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 31 c2pyyB_ not modelled 99.9 21 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 32 c1yaeB_ not modelled 99.9 20 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 33 c2rc9A_ not modelled 99.9 20 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 34 c2v3tA_ not modelled 99.9 20 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 d2f34a1 not modelled 99.9 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 36 c3kg2A_ not modelled 99.8 27 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 98.3 10 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 c3e4rA_ not modelled 97.7 13 PDB header:transport protein Chain: A: PDB Molecule:nitrate transport protein; PDBTitle: crystal structure of the alkanesulfonate binding protein2 (ssua) from the phytopathogenic bacteria xanthomonas3 axonopodis pv. citri bound to hepes 39 d1xs5a_ not modelled 97.7 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 40 c2x26A_ not modelled 97.7 18 PDB header:transport protein Chain: A: PDB Molecule:periplasmic aliphatic sulphonates-binding protein; PDBTitle: crystal structure of the periplasmic aliphatic sulphonate2 binding protein ssua from escherichia coli 41 c3k2dA_ not modelled 97.5 13 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 42 c3tqwA_ not modelled 97.3 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 43 c3l6gA_ not modelled 97.2 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 44 c2x7pA_ not modelled 97.0 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 45 c3gxaA_ not modelled 96.8 15 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 46 c3uifA_ not modelled 96.8 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 47 c3ix1B_ not modelled 96.5 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 48 c3ix1A_ not modelled 96.5 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 49 c3ir1F_ not modelled 96.5 15 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 50 c3qslA_ not modelled 95.8 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 51 c3un6A_ not modelled 95.7 12 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 52 c3tmgA_ not modelled 95.1 14 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 53 c2g29A_ not modelled 94.7 15 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 54 d1zbma1 not modelled 94.5 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 55 c3ho7A_ not modelled 93.8 16 PDB header:transcription Chain: A: PDB Molecule:oxyr; PDBTitle: crystal structure of oxyr from porphyromonas gingivalis 56 d1p99a_ not modelled 93.8 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 57 c1p99A_ not modelled 93.8 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus 58 c2ql3G_ not modelled 92.3 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 59 c2i4cA_ not modelled 92.1 13 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 60 c3n6uA_ not modelled 91.6 9 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 61 d1i6aa_ not modelled 90.4 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 62 d1al3a_ not modelled 90.4 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 63 c1al3A_ not modelled 90.4 12 PDB header:transcription regulation Chain: A: PDB Molecule:cys regulon transcriptional activator cysb; PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes 64 c3lr1A_ not modelled 88.1 12 PDB header:transport protein Chain: A: PDB Molecule:tungstate abc transporter, periplasmic tungstate- PDBTitle: the crystal structure of the tungstate abc transporter from2 geobacter sulfurreducens 65 c3jv9B_ not modelled 88.0 12 PDB header:transcription Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: the structure of a reduced form of oxyr from n. meningitidis 66 d2czla1 not modelled 83.5 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 67 c3muqB_ not modelled 82.4 14 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 68 c2rejA_ not modelled 81.5 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 69 c3fd3A_ not modelled 78.8 7 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. 70 c3hn0A_ not modelled 77.7 12 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 71 c2de4B_ not modelled 76.1 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 72 d1amfa_ not modelled 74.8 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 73 c3fj7A_ not modelled 68.7 16 PDB header:protein binding Chain: A: PDB Molecule:major antigenic peptide peb3; PDBTitle: crystal structure of l-phospholactate bound peb3 74 c3chgB_ not modelled 68.4 12 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 75 d2nxoa1 not modelled 63.4 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 76 d2esna2 not modelled 62.9 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 77 c2vd3B_ not modelled 60.1 12 PDB header:transferase Chain: B: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: the structure of histidine inhibited hisg from2 methanobacterium thermoautotrophicum 78 c2uyeA_ not modelled 58.0 7 PDB header:transcription Chain: A: PDB Molecule:regulatory protein; PDBTitle: double mutant y110s,f111v dntr from burkholderia sp. strain2 dnt in complex with thiocyanate 79 c2h5yC_ not modelled 54.1 9 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 80 d1atga_ not modelled 54.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 81 c3b50A_ not modelled 53.8 16 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. 82 c2f78A_ not modelled 52.0 10 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator benm; PDBTitle: benm effector binding domain with its effector benzoate 83 c3hhfB_ not modelled 39.9 10 PDB header:transcription regulator Chain: B: PDB Molecule:transcriptional regulator, lysr family; PDBTitle: structure of crga regulatory domain, a lysr-type transcriptional2 regulator from neisseria meningitidis. 84 c2h9qC_ not modelled 38.3 10 PDB header:transcription Chain: C: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: crystal structure of the effector binding domain of a catm2 variant (r156h) 85 d2ozza1 not modelled 38.0 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 86 c2dvzA_ not modelled 37.9 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 87 d1ixca2 not modelled 37.6 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 88 c2f7cA_ not modelled 37.3 10 PDB header:gene regulation Chain: A: PDB Molecule:hth-type transcriptional regulator catm; PDBTitle: catm effector binding domain with its effector cis,cis-muconate 89 c2f5xC_ not modelled 33.7 10 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 90 c3kn3C_ not modelled 32.5 13 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 91 d1us5a_ not modelled 29.3 21 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 92 d2fyia1 not modelled 28.9 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 93 c3fxbB_ not modelled 27.6 14 PDB header:transport protein Chain: B: PDB Molecule:trap dicarboxylate transporter, dctp subunit; PDBTitle: crystal structure of the ectoine-binding protein ueha 94 c2hxrA_ not modelled 26.6 10 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 95 c2h9bB_ not modelled 26.2 11 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) 96 c1jvnB_ not modelled 25.8 11 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 97 c1twyG_ not modelled 24.2 12 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 98 d1twya_ not modelled 24.2 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 99 d2o38a1 not modelled 23.6 30 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:NE1354 100 c2o38A_ not modelled 23.6 30 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein; PDBTitle: putative xre family transcriptional regulator 101 c3kosA_ not modelled 22.2 8 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional activator ampr; PDBTitle: structure of the ampr effector binding domain from citrobacter2 freundii 102 c2qpqC_ not modelled 21.8 12 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 103 c3mz1D_ not modelled 20.8 6 PDB header:transcription regulator Chain: D: PDB Molecule:putative transcriptional regulator; PDBTitle: the crystal structure of a possible transcription regulator protein2 from sinorhizobium meliloti 1021

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