Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	S	T	L	R	R	T	L	F	A	L	L	A	C	A	S	F	I	V	H	A	A	A	P	D	E	I	T	T	A	W	P	V	N	V	G	P	L	N	P	H	L	Y	T	P	N	Q	M	F	A	Q	S	M	V	Y	E	P	L	V
Secondary structure
SS confidence
Disorder		?															?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	Y	Q	A	D	G	S	V	I	P	W	L	A	K	S	W	T	H	S	E	D	G	K	T	W	T	F	T	L	R	D	D	V	K	F	S	N	G	E	P	F	D	A	E	A	A	A	E	N	F	R	A	V	L	D	N	R	Q	R	H
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	W	L	E	L	A	N	Q	I	V	D	V	K	A	L	S	K	T	E	L	Q	I	T	L	K	S	A	Y	Y	P	F	L	Q	E	L	A	L	P	R	P	F	R	F	I	A	P	S	Q	F	K	N	H	E	T	M	N	G	I	K	A
Secondary structure
SS confidence
Disorder			?	?																																				?	?	?	?	?										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	I	G	T	G	P	W	I	L	Q	E	S	K	L	N	Q	Y	D	V	F	V	R	N	E	N	Y	W	G	E	K	P	A	I	K	K	I	T	F	N	V	I	P	D	P	T	T	R	A	V	A	F	E	T	G	D	I	D	L	L	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	N	E	G	L	L	P	L	D	T	F	A	R	F	S	Q	N	P	A	Y	H	T	Q	L	S	Q	P	I	E	T	V	M	L	A	L	N	T	A	K	A	P	T	N	E	L	A	V	R	E	A	L	N	Y	A	V	N	K	K	S	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		I	D	N	A	L	Y	G	T	Q	Q	V	A	D	T	L	F	A	P	S	V	P	Y	A	N	L	G	L	K	P	S	Q	Y	D	P	Q	K	A	K	A	L	L	E	K	A	G	W	T	L	P	A	G	K	D	I	R	E	K	N	G	Q
Secondary structure
SS confidence
Disorder													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		P	L	R	I	E	L	S	F	I	G	T	D	A	L	S	K	S	M	A	E	I	I	Q	A	D	M	R	Q	I	G	A	D	V	S	L	I	G	E	E	E	S	S	I	Y	A	R	Q	R	D	G	R	F	G	M	I	F	H	R	T	W
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		G	A	P	Y	D	P	H	A	F	L	S	S	M	R	V	P	S	H	A	D	F	Q	A	Q	Q	G	L	A	D	K	P	L	I	D	K	E	I	G	E	V	L	A	T	H	D	E	T	Q	R	Q	A	L	Y	R	D	I	L	T	R	L
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?			?																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.	.	.	.	.	.	.	.	520	.	.	.	.
Sequence		H	D	E	A	V	Y	L	P	I	S	Y	I	S	M	M	V	V	S	K	P	E	L	G	N	I	P	Y	A	P	I	A	T	E	I	P	F	E	Q	I	K	P	V	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 1zlq chain A domain 1 Region: 25 - 523 Aligned: 499 Modelled: 499 Confidence: 100.0% Identity: 100% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1xoc chain A domain 1 Region: 22 - 523 Aligned: 493 Modelled: 502 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: 26 - 521 Aligned: 483 Modelled: 488 Confidence: 100.0% Identity: 26% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3tpa chain A Region: 26 - 521 Aligned: 482 Modelled: 496 Confidence: 100.0% Identity: 24% 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: 26 - 522 Aligned: 483 Modelled: 497 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 1jet chain A Region: 20 - 523 Aligned: 486 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 3o9p chain A Region: 23 - 523 Aligned: 481 Modelled: 497 Confidence: 100.0% Identity: 22% 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 3t66 chain A Region: 25 - 521 Aligned: 473 Modelled: 494 Confidence: 100.0% Identity: 24% 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 1uqw chain A Region: 24 - 521 Aligned: 478 Modelled: 498 Confidence: 100.0% Identity: 22% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2wok chain A Region: 21 - 523 Aligned: 485 Modelled: 489 Confidence: 100.0% Identity: 18% 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 1zty chain A Region: 25 - 515 Aligned: 483 Modelled: 486 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: 25 - 506 Aligned: 474 Modelled: 478 Confidence: 100.0% Identity: 18% 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 2grv chain C Region: 24 - 519 Aligned: 488 Modelled: 493 Confidence: 100.0% Identity: 18% PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw Phyre2 PDB 3fto chain A Region: 22 - 524 Aligned: 491 Modelled: 491 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 3rqt chain A Region: 25 - 514 Aligned: 457 Modelled: 484 Confidence: 100.0% Identity: 20% 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 3ry3 chain B Region: 27 - 520 Aligned: 468 Modelled: 494 Confidence: 100.0% Identity: 21% PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. Phyre2 PDB 1vr5 chain A domain 1 Region: 25 - 523 Aligned: 493 Modelled: 499 Confidence: 100.0% Identity: 18% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2d5w chain A Region: 22 - 516 Aligned: 494 Modelled: 494 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 3lvu chain B Region: 267 - 491 Aligned: 224 Modelled: 224 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: 270 - 491 Aligned: 219 Modelled: 220 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 d1zlqa1 2 d1xoca1 3 d1dpea_ 4 c3tpaA_ 5 c3m8uA_ 6 d1jeta_ 7 c3o9pA_ 8 c3t66A_ 9 d1uqwa_ 10 c2wokA_ 11 c1ztyA_ 12 c2o7jA_ 13 c2grvC_ 14 c3ftoA_ 15 c3rqtA_ 16 c3ry3B_ 17 d1vr5a1 18 c2d5wA_ 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 99 100 101 102 103 104 105 106

Detailed template information

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

1 d1zlqa1 100.0 100 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 d1xoca1 100.0 20 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 3 d1dpea_ 100.0 26 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 4 c3tpaA_ 100.0 24 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 5 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) 6 d1jeta_ 100.0 24 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 7 c3o9pA_ 100.0 22 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 8 c3t66A_ 100.0 24 PDB header:transport protein Chain: A: PDB Molecule:nickel abc transporter (nickel-binding protein); PDBTitle: crystal structure of nickel abc transporter from bacillus halodurans 9 d1uqwa_ 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 10 c2wokA_ 100.0 18 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 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 18 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 c2grvC_ 100.0 18 PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw 14 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 15 c3rqtA_ 100.0 20 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 16 c3ry3B_ 100.0 21 PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. 17 d1vr5a1 100.0 18 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 18 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 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 23 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 c3l6gA_ not modelled 95.6 10 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 23 c3chgB_ not modelled 95.3 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 24 c3tmgA_ not modelled 94.9 7 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 c3nohA_ not modelled 94.0 23 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 26 c2rejA_ not modelled 93.4 7 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 92.1 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 28 d1e5da1 not modelled 89.5 10 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 29 c3r6uA_ not modelled 87.2 11 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 30 d1ycga1 not modelled 86.0 11 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 31 c3hlyA_ not modelled 85.8 9 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. 32 c3f6sI_ not modelled 85.5 14 PDB header:electron transport Chain: I: PDB Molecule:flavodoxin; PDBTitle: desulfovibrio desulfuricans (atcc 29577) oxidized flavodoxin2 alternate conformers 33 d2p0la1 not modelled 80.2 11 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:LplA-like 34 c1tvmA_ not modelled 78.4 21 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 d1f4pa_ not modelled 77.9 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 36 d1sw5a_ not modelled 73.7 8 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 37 d2fz5a1 not modelled 71.6 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 38 c3pppA_ not modelled 71.5 13 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 39 d1vmea1 not modelled 66.9 6 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 40 c3ir1F_ not modelled 66.2 14 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 41 d5nula_ not modelled 64.0 11 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 42 d1ykga1 not modelled 61.8 9 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 43 c3gxaA_ not modelled 61.1 14 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 44 c3fniA_ not modelled 58.4 13 PDB header:oxidoreductase Chain: A: PDB Molecule:putative diflavin flavoprotein a 3; PDBTitle: crystal structure of a diflavin flavoprotein a3 (all3895) from nostoc2 sp., northeast structural genomics consortium target nsr431a 45 c2zykA_ not modelled 58.2 8 PDB header:sugar binding protein Chain: A: PDB Molecule:solute-binding protein; PDBTitle: crystal structure of cyclo/maltodextrin-binding protein2 complexed with gamma-cyclodextrin 46 c3nbmA_ not modelled 56.8 14 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. 47 c3hr4C_ not modelled 55.5 13 PDB header:oxidoreductase/metal binding protein Chain: C: PDB Molecule:nitric oxide synthase, inducible; PDBTitle: human inos reductase and calmodulin complex 48 d2arka1 not modelled 54.9 12 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like 49 d1xs5a_ not modelled 51.8 9 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 50 c3kzgB_ not modelled 51.5 7 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 51 c3n5lA_ not modelled 49.8 16 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 52 c2q9uB_ not modelled 49.5 11 PDB header:oxidoreductase Chain: B: PDB Molecule:a-type flavoprotein; PDBTitle: crystal structure of the flavodiiron protein from giardia2 intestinalis 53 d1s8na_ not modelled 48.9 9 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 54 d1tlla2 not modelled 48.4 9 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 55 d1bvyf_ not modelled 47.0 5 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 56 c1bvyF_ not modelled 47.0 5 PDB header:oxidoreductase Chain: F: PDB Molecule:protein (cytochrome p450 bm-3); PDBTitle: complex of the heme and fmn-binding domains of the2 cytochrome p450(bm-3) 57 d1b0aa2 not modelled 42.4 7 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Tetrahydrofolate dehydrogenase/cyclohydrolase 58 d1ja1a2 not modelled 39.8 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 59 c3t6kB_ not modelled 39.2 10 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 60 c1ychD_ not modelled 39.2 13 PDB header:oxidoreductase Chain: D: PDB Molecule:nitric oxide reductase; PDBTitle: x-ray crystal structures of moorella thermoacetica fpra.2 novel diiron site structure and mechanistic insights into3 a scavenging nitric oxide reductase 61 c3d7nA_ not modelled 38.7 10 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 62 c3lr1A_ not modelled 38.6 13 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 63 c2ek8A_ not modelled 38.5 10 PDB header:hydrolase Chain: A: PDB Molecule:aminopeptidase; PDBTitle: aminopeptidase from aneurinibacillus sp. strain am-1 64 c3ombA_ not modelled 38.3 9 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 65 c2hnbA_ not modelled 37.7 17 PDB header:electron transport Chain: A: PDB Molecule:protein mioc; PDBTitle: solution structure of a bacterial holo-flavodoxin 66 c3kn3C_ not modelled 37.3 7 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 67 d1xhfa1 not modelled 35.4 5 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 68 c3i6vA_ not modelled 35.2 14 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 69 d2b4aa1 not modelled 34.4 20 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 70 c2uzhB_ not modelled 33.9 26 PDB header:lyase Chain: B: PDB Molecule:2c-methyl-d-erythritol 2,4-cyclodiphosphate PDBTitle: mycobacterium smegmatis 2c-methyl-d-erythritol-2,4-2 cyclodiphosphate synthase (ispf) 71 c2uvgA_ not modelled 33.7 9 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 72 d1iiba_ not modelled 32.8 8 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Lactose/Cellobiose specific IIB subunit 73 d1p99a_ not modelled 32.2 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 74 c1p99A_ not modelled 32.2 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 75 d1mvoa_ not modelled 31.9 12 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 76 c1x2gB_ not modelled 31.6 8 PDB header:ligase Chain: B: PDB Molecule:lipoate-protein ligase a; PDBTitle: crystal structure of lipate-protein ligase a from2 escherichia coli 77 c2v25B_ not modelled 31.6 12 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 78 d1mb3a_ not modelled 31.0 10 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 79 c3hv1A_ not modelled 30.8 13 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 80 c3k2dA_ not modelled 30.4 15 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 81 d1ydga_ not modelled 28.9 23 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like 82 d1a4ia2 not modelled 28.7 17 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Tetrahydrofolate dehydrogenase/cyclohydrolase 83 c2rc9A_ not modelled 28.5 10 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 84 d1zgza1 not modelled 28.0 13 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 85 d1ys7a2 not modelled 27.9 10 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 86 c3c97A_ not modelled 27.5 10 PDB header:signaling protein, transferase Chain: A: PDB Molecule:signal transduction histidine kinase; PDBTitle: crystal structure of the response regulator receiver domain2 of a signal transduction histidine kinase from aspergillus3 oryzae 87 c3guxA_ not modelled 27.0 20 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 88 c3a0rB_ not modelled 26.8 7 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) 89 c2l2qA_ not modelled 26.4 12 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 90 c3r39A_ not modelled 25.7 8 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 91 d1b1ca_ not modelled 25.5 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 92 c2ohiB_ not modelled 24.6 17 PDB header:oxidoreductase Chain: B: PDB Molecule:type a flavoprotein fpra; PDBTitle: crystal structure of coenzyme f420h2 oxidase (fpra), a diiron2 flavoprotein, reduced state 93 c2ylnA_ not modelled 24.2 23 PDB header:transport protein Chain: A: PDB Molecule:putative abc transporter, periplasmic binding protein, PDBTitle: crystal structure of the l-cystine solute receptor of2 neisseria gonorrhoeae in the closed conformation 94 d1x2ga2 not modelled 24.1 8 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:LplA-like 95 c2oqrA_ not modelled 23.3 8 PDB header:transcription,signaling protein Chain: A: PDB Molecule:sensory transduction protein regx3; PDBTitle: the structure of the response regulator regx3 from mycobacterium2 tuberculosis 96 c3grcD_ not modelled 23.2 8 PDB header:transferase Chain: D: PDB Molecule:sensor protein, kinase; PDBTitle: crystal structure of a sensor protein from polaromonas sp.2 js666 97 d1us5a_ not modelled 23.1 14 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 98 c3muqB_ not modelled 22.7 11 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 99 c3c3mA_ not modelled 22.5 8 PDB header:signaling protein Chain: A: PDB Molecule:response regulator receiver protein; PDBTitle: crystal structure of the n-terminal domain of response regulator2 receiver protein from methanoculleus marisnigri jr1 100 c2z8fB_ not modelled 22.2 11 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 101 c2j48A_ not modelled 22.2 11 PDB header:transferase Chain: A: PDB Molecule:two-component sensor kinase; PDBTitle: nmr structure of the pseudo-receiver domain of the cika2 protein. 102 c3hdvB_ not modelled 22.1 13 PDB header:transcription regulator Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator receiver protein from2 pseudomonas putida 103 d1yioa2 not modelled 21.6 13 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 104 c1vmeB_ not modelled 21.4 11 PDB header:electron transport Chain: B: PDB Molecule:flavoprotein; PDBTitle: crystal structure of flavoprotein (tm0755) from thermotoga maritima at2 1.80 a resolution 105 c3t6mA_ not modelled 21.3 6 PDB header:hydrolase Chain: A: PDB Molecule:succinyl-diaminopimelate desuccinylase; PDBTitle: crystal structure of the catalytic domain of dape protein from2 v.cholerea in the zn bound form 106 c2y7iB_ not modelled 21.1 13 PDB header:arginine-binding protein Chain: B: PDB Molecule:stm4351; PDBTitle: structural basis for high arginine specificity in salmonella2 typhimurium periplasmic binding protein stm4351.

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