Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Y	T	R	N	L	L	W	L	V	S	L	V	S	A	A	P	L	Y	A	A	D	V	P	A	N	T	P	L	A	P	Q	Q	V	F	R	Y	N	N	H	S	D	P	G	T	L	D	P	Q	K	V	E	E	N	T	A	A	Q	I	V
Secondary structure
SS confidence
Disorder		?	?	?	?															?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	D	L	F	E	G	L	V	W	M	D	G	E	G	Q	V	Q	P	A	Q	A	E	R	W	E	I	L	D	G	G	K	R	Y	I	F	H	L	R	S	G	L	Q	W	S	D	G	Q	P	L	T	A	E	D	F	V	L	G	W	Q	R
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	V	D	P	K	T	A	S	P	F	A	G	Y	L	A	Q	A	H	I	N	N	A	A	A	I	V	A	G	K	A	D	V	T	S	L	G	V	K	A	T	D	D	R	T	L	E	V	T	L	E	Q	P	V	P	W	F	T	T	M	L
Secondary structure
SS confidence
Disorder																											?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	W	P	T	L	F	P	V	P	H	H	V	I	A	K	H	G	D	S	W	S	K	P	E	N	M	V	Y	N	G	A	F	V	L	D	Q	W	V	V	N	E	K	I	T	A	R	K	N	P	K	Y	R	D	A	Q	H	T	V	L	Q
Secondary structure
SS confidence
Disorder				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		Q	V	E	Y	L	A	L	D	N	S	V	T	G	Y	N	R	Y	R	A	G	E	V	D	L	T	W	V	P	A	Q	Q	I	P	A	I	E	K	S	L	P	G	E	L	R	I	I	P	R	L	N	S	E	Y	Y	N	F	N	L	E	K
Secondary structure
SS confidence
Disorder																																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		P	P	F	N	D	V	R	V	R	R	A	L	Y	L	T	V	D	R	Q	L	I	A	Q	K	V	L	G	L	R	T	P	A	T	T	L	T	P	P	E	V	K	G	F	S	A	T	T	F	D	E	L	Q	K	P	M	S	E	R	V	A
Secondary structure
SS confidence
Disorder																																	?	?																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		M	A	K	A	L	L	K	Q	A	G	Y	D	A	S	H	P	L	R	F	E	L	F	Y	N	K	Y	D	L	H	E	K	T	A	I	A	L	S	S	E	W	K	K	W	L	G	A	Q	V	T	L	R	T	M	E	W	K	T	Y	L	D
Secondary structure
SS confidence
Disorder										?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		A	R	R	A	G	D	F	M	L	S	R	Q	S	W	D	A	T	Y	N	D	A	S	S	F	L	N	T	L	K	S	D	S	E	E	N	V	G	H	W	K	N	A	Q	Y	D	A	L	L	N	Q	A	T	Q	I	T	D	A	T	K	R
Secondary structure
SS confidence
Disorder																																		?	?	?	?	?	?	?														?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.
Sequence		N	A	L	Y	Q	Q	A	E	V	I	I	N	Q	Q	A	P	L	I	P	I	Y	Y	Q	P	L	I	K	L	L	K	P	Y	V	G	G	F	P	L	H	N	P	Q	D	Y	V	Y	S	K	E	L	Y	I	K	A	H
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 1jet chain A Region: 21 - 535 Aligned: 514 Modelled: 515 Confidence: 100.0% Identity: 46% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3o9p chain A Region: 30 - 535 Aligned: 504 Modelled: 506 Confidence: 100.0% Identity: 42% PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:periplasmic murein peptide-binding protein; PDBTitle: the structure of the escherichia coli murein tripeptide binding2 protein mppa Phyre2 PDB 1xoc chain A domain 1 Region: 28 - 534 Aligned: 485 Modelled: 490 Confidence: 100.0% Identity: 20% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1dpe chain A Region: 33 - 533 Aligned: 488 Modelled: 501 Confidence: 100.0% Identity: 24% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3tpa chain A Region: 33 - 533 Aligned: 488 Modelled: 501 Confidence: 100.0% Identity: 25% PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis Phyre2 PDB 2wok chain A Region: 19 - 534 Aligned: 508 Modelled: 516 Confidence: 100.0% Identity: 20% PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:clavulanic acid biosynthesis oligopeptide PDBTitle: clavulanic acid biosynthesis oligopeptide2 binding protein 2 complexed with bradykinin Phyre2 PDB 3m8u chain A Region: 32 - 534 Aligned: 490 Modelled: 503 Confidence: 100.0% Identity: 23% PDB header:transport protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: crystal structure of glutathione-binding protein a (gbpa) from2 haemophilus parasuis sh0165 in complex with glutathione disulfide3 (gssg) Phyre2 PDB 1zlq chain A domain 1 Region: 32 - 534 Aligned: 479 Modelled: 486 Confidence: 100.0% Identity: 22% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1uqw chain A Region: 33 - 533 Aligned: 473 Modelled: 476 Confidence: 100.0% Identity: 23% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3t66 chain A Region: 32 - 532 Aligned: 463 Modelled: 474 Confidence: 100.0% Identity: 20% PDB header:transport protein Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein); PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans Phyre2 PDB 3rqt chain A Region: 32 - 535 Aligned: 464 Modelled: 477 Confidence: 100.0% Identity: 18% PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: 1.5 angstrom crystal structure of the complex of ligand binding2 component of abc-type import system from staphylococcus aureus with3 nickel and two histidines Phyre2 PDB 1zty chain A Region: 32 - 531 Aligned: 478 Modelled: 482 Confidence: 100.0% Identity: 17% PDB header:sugar binding protein, signaling protein Chain: A: PDB Molecule:chitin oligosaccharide binding protein; PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein Phyre2 PDB 3fto chain A Region: 22 - 534 Aligned: 503 Modelled: 507 Confidence: 100.0% Identity: 19% PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation Phyre2 PDB 2o7j chain A Region: 28 - 517 Aligned: 468 Modelled: 467 Confidence: 100.0% Identity: 17% PDB header:sugar binding protein Chain: A: PDB Molecule:oligopeptide abc transporter, periplasmic PDBTitle: the x-ray crystal structure of a thermophilic cellobiose2 binding protein bound with cellopentaose Phyre2 PDB 1vr5 chain A domain 1 Region: 30 - 531 Aligned: 480 Modelled: 485 Confidence: 100.0% Identity: 20% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2grv chain C Region: 32 - 535 Aligned: 472 Modelled: 480 Confidence: 100.0% Identity: 17% PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw Phyre2 PDB 2d5w chain A Region: 31 - 534 Aligned: 478 Modelled: 486 Confidence: 100.0% Identity: 18% 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 Phyre2 PDB 3ry3 chain B Region: 34 - 530 Aligned: 454 Modelled: 470 Confidence: 100.0% Identity: 19% PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. Phyre2 PDB 3lvu chain B Region: 288 - 502 Aligned: 215 Modelled: 215 Confidence: 100.0% Identity: 19% PDB header:transport protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of abc transporter, periplasmic substrate-binding2 protein spo2066 from silicibacter pomeroyi Phyre2 PDB 3pam chain B Region: 291 - 502 Aligned: 212 Modelled: 210 Confidence: 100.0% Identity: 17% PDB header:transport protein Chain: B: PDB Molecule:transmembrane protein; PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1 Phyre2 1 d1jeta_ 2 c3o9pA_ 3 d1xoca1 4 d1dpea_ 5 c3tpaA_ 6 c2wokA_ 7 c3m8uA_ 8 d1zlqa1 9 d1uqwa_ 10 c3t66A_ 11 c3rqtA_ 12 c1ztyA_ 13 c3ftoA_ 14 c2o7jA_ 15 d1vr5a1 16 c2grvC_ 17 c2d5wA_ 18 c3ry3B_ 19 c3lvuB_ 20 c3pamB_ 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

Detailed template information

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

1 d1jeta_ 100.0 46 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 c3o9pA_ 100.0 42 PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:periplasmic murein peptide-binding protein; PDBTitle: the structure of the escherichia coli murein tripeptide binding2 protein mppa 3 d1xoca1 100.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 4 d1dpea_ 100.0 24 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 5 c3tpaA_ 100.0 25 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 6 c2wokA_ 100.0 20 PDB header:peptide binding protein/peptide Chain: A: PDB Molecule:clavulanic acid biosynthesis oligopeptide PDBTitle: clavulanic acid biosynthesis oligopeptide2 binding protein 2 complexed with bradykinin 7 c3m8uA_ 100.0 23 PDB header:transport protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: crystal structure of glutathione-binding protein a (gbpa) from2 haemophilus parasuis sh0165 in complex with glutathione disulfide3 (gssg) 8 d1zlqa1 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 9 d1uqwa_ 100.0 23 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 10 c3t66A_ 100.0 20 PDB header:transport protein Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein); PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans 11 c3rqtA_ 100.0 18 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: 1.5 angstrom crystal structure of the complex of ligand binding2 component of abc-type import system from staphylococcus aureus with3 nickel and two histidines 12 c1ztyA_ 100.0 17 PDB header:sugar binding protein, signaling protein Chain: A: PDB Molecule:chitin oligosaccharide binding protein; PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein 13 c3ftoA_ 100.0 19 PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation 14 c2o7jA_ 100.0 17 PDB header:sugar binding protein Chain: A: PDB Molecule:oligopeptide abc transporter, periplasmic PDBTitle: the x-ray crystal structure of a thermophilic cellobiose2 binding protein bound with cellopentaose 15 d1vr5a1 100.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 16 c2grvC_ 100.0 17 PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw 17 c2d5wA_ 100.0 18 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 18 c3ry3B_ 100.0 19 PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. 19 c3lvuB_ 100.0 19 PDB header:transport protein Chain: B: PDB Molecule:abc transporter, periplasmic substrate-binding protein; PDBTitle: crystal structure of abc transporter, periplasmic substrate-binding2 protein spo2066 from silicibacter pomeroyi 20 c3pamB_ 100.0 17 PDB header:transport protein Chain: B: PDB Molecule:transmembrane protein; PDBTitle: crystal structure of a domain of transmembrane protein of abc-type2 oligopeptide transport system from bartonella henselae str. houston-1 21 c3o6pA_ not modelled 100.0 25 PDB header:protein binding Chain: A: PDB Molecule:peptide abc transporter, peptide-binding protein; PDBTitle: crystal structure of peptide abc transporter, peptide-binding protein 22 c3chgB_ not modelled 96.6 21 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 23 c3l6gA_ not modelled 95.5 15 PDB header:glycine betaine-binding protein Chain: A: PDB Molecule:betaine abc transporter permease and substrate binding PDBTitle: crystal structure of lactococcal opuac in its open conformation 24 c3tmgA_ not modelled 95.1 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 25 c2rejA_ not modelled 93.7 10 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 26 d1r9la_ not modelled 93.4 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 27 c3kn3C_ not modelled 87.7 11 PDB header:transcription Chain: C: PDB Molecule:putative periplasmic protein; PDBTitle: crystal structure of lysr substrate binding domain (25-263) of2 putative periplasmic protein from wolinella succinogenes 28 c3lr1A_ not modelled 80.4 14 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 29 c3r6uA_ not modelled 78.3 11 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 30 c3ombA_ not modelled 75.6 6 PDB header:transport protein Chain: A: PDB Molecule:extracellular solute-binding protein, family 1; PDBTitle: crystal structure of extracellular solute-binding protein from2 bifidobacterium longum subsp. infantis 31 c3ir1F_ not modelled 75.1 11 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 32 c3kzgB_ not modelled 71.0 22 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 33 c3gxaA_ not modelled 67.8 11 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 34 c1tvmA_ not modelled 66.7 9 PDB header:transferase Chain: A: PDB Molecule:pts system, galactitol-specific iib component; PDBTitle: nmr structure of enzyme gatb of the galactitol-specific2 phosphoenolpyruvate-dependent phosphotransferase system 35 c3muqB_ not modelled 66.0 18 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 36 c3k2dA_ not modelled 62.0 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 37 d1sw5a_ not modelled 61.8 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 38 c2rc9A_ not modelled 61.2 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 39 c3nohA_ not modelled 60.9 21 PDB header:peptide binding protein Chain: A: PDB Molecule:putative peptide binding protein; PDBTitle: crystal structure of a putative peptide binding protein (rumgna_00914)2 from ruminococcus gnavus atcc 29149 at 1.60 a resolution 40 d2a5sa1 not modelled 56.2 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 41 c3pppA_ not modelled 54.5 12 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 42 c2xx7B_ not modelled 54.4 19 PDB header:transport protein Chain: B: PDB Molecule:glutamate receptor 2; PDBTitle: crystal structure of 1-(4-(1-pyrrolidinylcarbonyl)phenyl)-3-2 (trifluoromethyl)-4,5,6,7-tetrahydro-1h-indazole in complex with3 the ligand binding domain of the rat glua2 receptor and glutamate4 at 2.2a resolution. 43 d1xs5a_ not modelled 50.5 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 44 c2v25B_ not modelled 48.4 14 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 45 c3tqwA_ not modelled 47.3 11 PDB header:transport protein Chain: A: PDB Molecule:methionine-binding protein; PDBTitle: structure of a abc transporter, periplasmic substrate-binding protein2 from coxiella burnetii 46 c2qpqC_ not modelled 47.3 15 PDB header:transport protein Chain: C: PDB Molecule:protein bug27; PDBTitle: structure of bug27 from bordetella pertussis 47 c3r39A_ not modelled 46.9 15 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 48 c2zykA_ not modelled 44.6 14 PDB header:sugar binding protein Chain: A: PDB Molecule:solute-binding protein; PDBTitle: crystal structure of cyclo/maltodextrin-binding protein2 complexed with gamma-cyclodextrin 49 c2ylnA_ not modelled 42.9 17 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 50 d1pb7a_ not modelled 42.8 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 51 c3pu5A_ not modelled 42.8 13 PDB header:transport protein Chain: A: PDB Molecule:extracellular solute-binding protein; PDBTitle: the crystal structure of a putative extracellular solute-binding2 protein from bordetella parapertussis 52 d1wdna_ not modelled 41.7 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 53 c2y7iB_ not modelled 39.8 15 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 54 c3ix1B_ not modelled 38.2 12 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 55 c3ix1A_ not modelled 38.2 12 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 56 c2gh9A_ not modelled 35.1 4 PDB header:sugar binding protein Chain: A: PDB Molecule:maltose/maltodextrin-binding protein; PDBTitle: thermus thermophilus maltotriose binding protein bound with2 maltotriose 57 c3k4uA_ not modelled 35.1 15 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 58 c3nbmA_ not modelled 34.9 11 PDB header:transferase Chain: A: PDB Molecule:pts system, lactose-specific iibc components; PDBTitle: the lactose-specific iib component domain structure of the2 phosphoenolpyruvate:carbohydrate phosphotransferase system (pts) from3 streptococcus pneumoniae. 59 c2q2aD_ not modelled 34.7 13 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 60 c3g41A_ not modelled 34.2 15 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 61 c2uvgA_ not modelled 32.5 12 PDB header:sugar-binding protein Chain: A: PDB Molecule:abc type periplasmic sugar-binding protein; PDBTitle: structure of a periplasmic oligogalacturonide binding2 protein from yersinia enterocolitica 62 c2l2qA_ not modelled 32.5 7 PDB header:transferase Chain: A: PDB Molecule:pts system, cellobiose-specific iib component (cela); PDBTitle: solution structure of cellobiose-specific phosphotransferase iib2 component protein from borrelia burgdorferi 63 c3delC_ not modelled 31.2 15 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 64 d1hsla_ not modelled 30.8 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 65 d1xvya_ not modelled 30.6 19 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 66 c1twyG_ not modelled 28.6 9 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 67 d1twya_ not modelled 28.6 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 68 d1amfa_ not modelled 28.3 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 69 c3cfzA_ not modelled 27.4 5 PDB header:transport protein Chain: A: PDB Molecule:upf0100 protein mj1186; PDBTitle: crystal structure of m. jannaschii periplasmic binding2 protein moda/wtpa with bound tungstate 70 c2h5yC_ not modelled 27.3 7 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 71 d1lsta_ not modelled 27.0 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 72 d2p0la1 not modelled 26.7 17 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:LplA-like 73 c2ieeB_ not modelled 26.2 22 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. 74 c3i6vA_ not modelled 26.1 15 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 75 c2f5xC_ not modelled 24.8 14 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 76 c2x7pA_ not modelled 23.7 7 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 77 d1g7da_ not modelled 23.6 25 Fold:ERP29 C domain-like Superfamily:ERP29 C domain-like Family:ERP29 C domain-like 78 c2dvzA_ not modelled 23.1 14 PDB header:transport protein Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of a periplasmic transporter 79 d1elja_ not modelled 22.7 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 80 d1iiba_ not modelled 22.6 7 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Lactose/Cellobiose specific IIB subunit 81 d1y4ta_ not modelled 22.5 6 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 82 c3qslA_ not modelled 22.3 13 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative exported protein; PDBTitle: structure of cae31940 from bordetella bronchiseptica rb50 83 c3kbrA_ not modelled 21.4 11 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 84 c3hv1A_ not modelled 20.1 20 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 85 d1nnfa_ not modelled 19.6 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 86 c3h7mA_ not modelled 19.6 16 PDB header:transferase Chain: A: PDB Molecule:sensor protein; PDBTitle: crystal structure of a histidine kinase sensor domain with2 similarity to periplasmic binding proteins 87 c3hn0A_ not modelled 19.3 13 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 88 c3oo6A_ not modelled 19.1 13 PDB header:sugar binding protein Chain: A: PDB Molecule:abc transporter binding protein acbh; PDBTitle: crystal structures and biochemical characterization of the bacterial2 solute receptor acbh reveal an unprecedented exclusive substrate3 preference for b-d-galactopyranose 89 d2f34a1 not modelled 18.1 16 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 90 d1xc1a_ not modelled 18.1 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 91 c2pfyA_ not modelled 17.4 13 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 92 c3k02A_ not modelled 17.2 12 PDB header:transport protein Chain: A: PDB Molecule:acarbose/maltose binding protein gach; PDBTitle: crystal structures of the gach receptor of streptomyces glaucescens2 gla.o in the unliganded form and in complex with acarbose and an3 acarbose homolog. comparison with acarbose-loaded maltose binding4 protein of salmonella typhimurium. 93 d1mqia_ not modelled 17.2 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 94 c1xofA_ not modelled 16.9 40 PDB header:de novo protein Chain: A: PDB Molecule:bbahett1; PDBTitle: heterooligomeric beta beta alpha miniprotein 95 d2onsa1 not modelled 14.9 5 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 96 c3un6A_ not modelled 14.4 8 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 97 d1e5da1 not modelled 14.4 11 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 98 c2z8fB_ not modelled 14.0 13 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 99 d1xvxa_ not modelled 13.9 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

---

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