Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	Q	V	L	S	S	L	L	V	I	A	G	L	V	S	G	Q	A	I	A	A	P	E	S	P	P	H	A	D	I	R	D	S	G	F	V	Y	C	V	S	G	Q	V	N	T	F	N	P	S	K	A	S	S	G	L	I	V	D	T
Secondary structure
SS confidence
Disorder		?															?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		L	A	A	Q	F	Y	D	R	L	L	D	V	D	P	Y	T	Y	R	L	M	P	E	L	A	E	S	W	E	V	L	D	N	G	A	T	Y	R	F	H	L	R	R	D	V	P	F	Q	K	T	D	W	F	T	P	T	R	K	M	N	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	D	V	V	F	T	F	Q	R	I	F	D	R	N	N	P	W	H	N	V	N	G	S	N	F	P	Y	F	D	S	L	Q	F	A	D	N	V	K	S	V	R	K	L	D	N	H	T	V	E	F	R	L	A	Q	P	D	A	S	F	L
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		W	H	L	A	T	H	Y	A	S	V	M	S	A	E	Y	A	R	K	L	E	K	E	D	R	Q	E	Q	L	D	R	Q	P	V	G	T	G	P	Y	Q	L	S	E	Y	R	A	G	Q	F	I	R	L	Q	R	H	D	D	F	W	R	G
Secondary structure
SS confidence
Disorder						?	?	?																	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		K	P	L	M	P	Q	V	V	V	D	L	G	S	G	G	T	G	R	L	S	K	L	L	T	G	E	C	D	V	L	A	W	P	A	A	S	Q	L	S	I	L	R	D	D	P	R	L	R	L	T	L	R	P	G	M	N	V	A	Y	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	F	N	T	A	K	P	P	L	N	N	P	A	V	R	H	A	L	A	L	A	I	N	N	Q	R	L	M	Q	S	I	Y	Y	G	T	A	E	T	A	A	S	I	L	P	R	A	S	W	A	Y	D	N	E	A	K	I	T	E	Y	N
Secondary structure
SS confidence
Disorder																																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		P	A	K	S	R	E	Q	L	K	S	L	G	L	E	N	L	T	L	K	L	W	V	P	T	R	S	Q	A	W	N	P	S	P	L	K	T	A	E	L	I	Q	A	D	M	A	Q	V	G	V	K	V	V	I	V	P	V	E	G	R	F
Secondary structure
SS confidence
Disorder																										?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		Q	E	A	R	L	M	D	M	S	H	D	L	T	L	S	G	W	A	T	D	S	N	D	P	D	S	F	F	R	P	L	L	S	C	A	A	I	H	S	Q	T	N	L	A	H	W	C	D	P	K	F	D	S	V	L	R	K	A	L	S
Secondary structure
SS confidence
Disorder																																				?		?	?	?	?		?																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.	.	.	.	.	.	530	.	.	.	.	.	.	.	.	.	540
Sequence		S	Q	Q	L	A	A	R	I	E	A	Y	D	E	A	Q	S	I	L	A	Q	E	L	P	I	L	P	L	A	S	S	L	R	L	Q	A	Y	R	Y	D	I	K	G	L	V	L	S	P	F	G	N	A	S	F	A	G	V	Y	R	E	K
Secondary structure
SS confidence
Disorder		?	?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		Q	D	E	V	K	K	P
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 1dpe chain A Region: 34 - 539 Aligned: 506 Modelled: 506 Confidence: 100.0% Identity: 36% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3tpa chain A Region: 34 - 539 Aligned: 505 Modelled: 506 Confidence: 100.0% Identity: 34% PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis Phyre2 PDB 3m8u chain A Region: 33 - 538 Aligned: 505 Modelled: 506 Confidence: 100.0% Identity: 36% 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 1jet chain A Region: 22 - 541 Aligned: 503 Modelled: 513 Confidence: 100.0% Identity: 22% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1zlq chain A domain 1 Region: 34 - 540 Aligned: 484 Modelled: 493 Confidence: 100.0% Identity: 23% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3o9p chain A Region: 31 - 541 Aligned: 493 Modelled: 511 Confidence: 100.0% Identity: 19% 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 2wok chain A Region: 16 - 540 Aligned: 506 Modelled: 519 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 1xoc chain A domain 1 Region: 29 - 540 Aligned: 487 Modelled: 501 Confidence: 100.0% Identity: 21% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1uqw chain A Region: 34 - 539 Aligned: 478 Modelled: 488 Confidence: 100.0% Identity: 28% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3t66 chain A Region: 33 - 535 Aligned: 464 Modelled: 486 Confidence: 100.0% Identity: 19% 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 1zty chain A Region: 33 - 545 Aligned: 487 Modelled: 493 Confidence: 100.0% Identity: 19% 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 2o7j chain A Region: 31 - 523 Aligned: 470 Modelled: 481 Confidence: 100.0% Identity: 19% 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: 31 - 539 Aligned: 486 Modelled: 497 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: 34 - 540 Aligned: 481 Modelled: 494 Confidence: 100.0% Identity: 16% PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw Phyre2 PDB 3fto chain A Region: 23 - 539 Aligned: 502 Modelled: 505 Confidence: 100.0% Identity: 16% PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation Phyre2 PDB 3rqt chain A Region: 33 - 533 Aligned: 458 Modelled: 486 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 2d5w chain A Region: 31 - 546 Aligned: 494 Modelled: 504 Confidence: 100.0% Identity: 19% 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: 35 - 543 Aligned: 465 Modelled: 488 Confidence: 100.0% Identity: 18% 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: 294 - 509 Aligned: 216 Modelled: 216 Confidence: 100.0% Identity: 18% 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: 297 - 509 Aligned: 213 Modelled: 211 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 d1dpea_ 2 c3tpaA_ 3 c3m8uA_ 4 d1jeta_ 5 d1zlqa1 6 c3o9pA_ 7 c2wokA_ 8 d1xoca1 9 d1uqwa_ 10 c3t66A_ 11 c1ztyA_ 12 c2o7jA_ 13 d1vr5a1 14 c2grvC_ 15 c3ftoA_ 16 c3rqtA_ 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 99 100 101 102 103 104 105

Detailed template information

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

1 d1dpea_ 100.0 36 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 c3tpaA_ 100.0 34 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 3 c3m8uA_ 100.0 36 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) 4 d1jeta_ 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 5 d1zlqa1 100.0 23 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 6 c3o9pA_ 100.0 19 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 7 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 8 d1xoca1 100.0 21 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 9 d1uqwa_ 100.0 28 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 10 c3t66A_ 100.0 19 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 c1ztyA_ 100.0 19 PDB header:sugar binding protein, signaling protein Chain: A: PDB Molecule:chitin oligosaccharide binding protein; PDBTitle: crystal structure of the chitin oligasaccharide binding2 protein 12 c2o7jA_ 100.0 19 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 13 d1vr5a1 100.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 14 c2grvC_ 100.0 16 PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw 15 c3ftoA_ 100.0 16 PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation 16 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 17 c2d5wA_ 100.0 19 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 18 PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. 19 c3lvuB_ 100.0 18 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 24 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 c3tmgA_ not modelled 95.5 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 23 c3nohA_ not modelled 95.1 14 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 24 c3l6gA_ not modelled 95.1 12 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 25 c3chgB_ not modelled 93.9 17 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 26 c2rejA_ not modelled 93.7 12 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 27 d1r9la_ not modelled 91.4 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 28 c3r6uA_ not modelled 91.4 11 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 29 d1sw5a_ not modelled 86.4 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 30 c3pppA_ not modelled 85.6 9 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 31 c3ir1F_ not modelled 72.0 14 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 32 c3hlyA_ not modelled 71.5 14 PDB header:flavoprotein Chain: A: PDB Molecule:flavodoxin-like domain; PDBTitle: crystal structure of the flavodoxin-like domain from2 synechococcus sp q5mzp6_synp6 protein. northeast structural3 genomics consortium target snr135d. 33 c2o1mB_ not modelled 67.3 10 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 34 c3kzgB_ not modelled 65.5 11 PDB header:transport protein Chain: B: PDB Molecule:arginine 3rd transport system periplasmic binding PDBTitle: crystal structure of an arginine 3rd transport system2 periplasmic binding protein from legionella pneumophila 35 d1xs5a_ not modelled 65.2 4 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 36 d1ycga1 not modelled 63.4 18 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 37 d1e5da1 not modelled 63.2 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 38 c3gxaA_ not modelled 61.3 14 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 39 c3un6A_ not modelled 57.9 5 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 40 c3k2dA_ not modelled 57.1 18 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 d2vv5a2 not modelled 55.7 16 Fold:Ferredoxin-like Superfamily:Mechanosensitive channel protein MscS (YggB), C-terminal domain Family:Mechanosensitive channel protein MscS (YggB), C-terminal domain 42 c3tqwA_ not modelled 53.4 13 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 c3f6sI_ not modelled 52.4 13 PDB header:electron transport Chain: I: PDB Molecule:flavodoxin; PDBTitle: desulfovibrio desulfuricans (atcc 29577) oxidized flavodoxin2 alternate conformers 44 c2rc9A_ not modelled 51.6 7 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 45 d1f4pa_ not modelled 50.6 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 46 c3kn3C_ not modelled 46.7 12 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 47 d1s8na_ not modelled 40.9 10 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 48 c3hn0A_ not modelled 40.8 18 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 49 d2p0la1 not modelled 40.4 14 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:LplA-like 50 d1p99a_ not modelled 40.2 17 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 51 c1p99A_ not modelled 40.2 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein pg110; PDBTitle: 1.7a crystal structure of protein pg110 from staphylococcus2 aureus 52 c3r39A_ not modelled 39.6 16 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 53 c2v25B_ not modelled 39.5 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 54 d2a9pa1 not modelled 38.7 16 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 55 c3o66A_ not modelled 38.1 7 PDB header:transport protein Chain: A: PDB Molecule:glycine betaine/carnitine/choline abc transporter; PDBTitle: crystal structure of glycine betaine/carnitine/choline abc transporter 56 c3muqB_ not modelled 37.2 9 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 57 c2y7iB_ not modelled 35.3 9 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351. 58 c3ix1B_ not modelled 35.2 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 59 c3ix1A_ not modelled 35.2 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 60 c2ylnA_ not modelled 34.6 20 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 61 d2a5sa1 not modelled 34.6 5 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 62 d1xhfa1 not modelled 34.2 16 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 63 c2j48A_ not modelled 33.1 19 PDB header:transferase Chain: A: PDB Molecule:two-component sensor kinase; PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein. 64 c3n5lA_ not modelled 32.9 14 PDB header:transport protein Chain: A: PDB Molecule:binding protein component of abc phosphonate transporter; PDBTitle: crystal structure of a binding protein component of abc phosphonate2 transporter (pa3383) from pseudomonas aeruginosa at 1.97 a resolution 65 d1wdna_ not modelled 32.4 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 66 c2q2aD_ not modelled 30.8 20 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 67 c3kbrA_ not modelled 30.7 12 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 68 c3lr1A_ not modelled 30.6 11 PDB header:transport protein Chain: A: PDB Molecule:tungstate abc transporter, periplasmic tungstate- PDBTitle: the crystal structure of the tungstate abc transporter from2 geobacter sulfurreducens 69 d1mb3a_ not modelled 30.5 14 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 70 d1zgza1 not modelled 30.0 23 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 71 c3g41A_ not modelled 29.6 17 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 72 d1twya_ not modelled 29.6 12 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 73 c1twyG_ not modelled 29.6 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 74 c3k4uA_ not modelled 29.5 22 PDB header:transport protein Chain: A: PDB Molecule:binding component of abc transporter; PDBTitle: crystal structure of putative binding component of abc transporter2 from wolinella succinogenes dsm 1740 complexed with lysine 75 c2f5xC_ not modelled 29.3 10 PDB header:transport protein Chain: C: PDB Molecule:bugd; PDBTitle: structure of periplasmic binding protein bugd 76 c2l2qA_ not modelled 28.8 8 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 77 c3ombA_ not modelled 28.6 14 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 78 d1mvoa_ not modelled 28.6 18 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 79 d2fz5a1 not modelled 27.6 13 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 80 c3d7nA_ not modelled 27.1 13 PDB header:electron transport Chain: A: PDB Molecule:flavodoxin, wrba-like protein; PDBTitle: the crystal structure of the flavodoxin, wrba-like protein from2 agrobacterium tumefaciens 81 d1ys7a2 not modelled 26.4 14 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 82 c1xt8B_ not modelled 26.2 14 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 83 c2l6nA_ not modelled 26.2 13 PDB header:structure genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yp_001092504.1; PDBTitle: nmr solution structure of the protein yp_001092504.1 84 c3hv1A_ not modelled 26.1 17 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 c3delC_ not modelled 25.5 19 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 86 c2yjpB_ not modelled 25.1 17 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 87 d1hsla_ not modelled 25.0 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 88 c2ek8A_ not modelled 24.7 29 PDB header:hydrolase Chain: A: PDB Molecule:aminopeptidase; PDBTitle: aminopeptidase from aneurinibacillus sp. strain am-1 89 c3khtA_ not modelled 22.5 10 PDB header:signaling protein Chain: A: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator from hahella chejuensis 90 c3guxA_ not modelled 22.3 13 PDB header:hydrolase Chain: A: PDB Molecule:putative zn-dependent exopeptidase; PDBTitle: crystal structure of a putative zn-dependent exopeptidase (bvu_1317)2 from bacteroides vulgatus atcc 8482 at 1.80 a resolution 91 d1uxya2 not modelled 22.3 9 Fold:Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain Superfamily:Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain Family:Uridine diphospho-N-Acetylenolpyruvylglucosamine reductase, MurB, C-terminal domain 92 c2f06B_ not modelled 22.3 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of protein bt0572 from bacteroides thetaiotaomicron 93 c3t6kB_ not modelled 22.2 12 PDB header:signaling protein Chain: B: PDB Molecule:response regulator receiver; PDBTitle: crystal structure of a hypothetical response regulator (caur_3799)2 from chloroflexus aurantiacus j-10-fl at 1.86 a resolution 94 c2x26A_ not modelled 22.1 12 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 95 c3i6vA_ not modelled 22.0 11 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 96 c2ieeB_ not modelled 22.0 11 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. 97 c2xx7B_ not modelled 21.6 14 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. 98 d1lsta_ not modelled 21.6 15 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 99 d1zh2a1 not modelled 21.6 14 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 100 c3e4rA_ not modelled 21.3 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 101 c2oqrA_ not modelled 21.3 14 PDB header:transcription,signaling protein Chain: A: PDB Molecule:sensory transduction protein regx3; PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis 102 c3f6cB_ not modelled 21.3 10 PDB header:dna binding protein Chain: B: PDB Molecule:positive transcription regulator evga; PDBTitle: crystal structure of n-terminal domain of positive transcription2 regulator evga from escherichia coli 103 d5nula_ not modelled 21.3 17 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 104 c3a0rB_ not modelled 20.8 11 PDB header:transferase Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of histidine kinase thka (tm1359) in complex with2 response regulator protein trra (tm1360) 105 c1tvmA_ not modelled 20.6 13 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

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