Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	R	A	V	H	R	S	G	L	V	A	L	G	I	A	T	A	L	M	A	S	C	A	F	A	A	K	D	V	V	V	A	V	G	S	N	F	T	T	L	D	P	Y	D	A	N	D	T	L	S	Q	A	V	A	K	S	F	Y	Q
Secondary structure
SS confidence
Disorder		?	?	?	?																?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	L	F	G	L	D	K	E	M	K	L	K	N	V	L	A	E	S	Y	T	V	S	D	D	G	I	T	Y	T	V	K	L	R	E	G	I	K	F	Q	D	G	T	D	F	N	A	A	A	V	K	A	N	L	D	R	A	S	D	P	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		N	H	L	K	R	Y	N	L	Y	K	N	I	A	K	T	E	A	I	D	P	T	T	V	K	I	T	L	K	Q	P	F	S	A	F	I	N	I	L	A	H	P	A	T	A	M	I	S	P	A	A	L	E	K	Y	G	K	E	I	G	F
Secondary structure
SS confidence
Disorder						?					?																														?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	P	V	G	T	G	P	Y	E	L	D	T	W	N	Q	T	D	F	V	K	V	K	K	F	A	G	Y	W	Q	P	G	L	P	K	L	D	S	I	T	W	R	P	V	A	D	N	N	T	R	A	A	M	L	Q	T	G	E	A	Q	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	F	P	I	P	Y	E	Q	A	T	L	L	E	K	N	K	N	I	E	L	M	A	S	P	S	I	M	Q	R	Y	I	S	M	N	V	T	Q	K	P	F	D	N	P	K	V	R	E	A	L	N	Y	A	I	N	R	P	A	L	V	K
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	A	F	A	G	Y	A	T	P	A	T	G	V	V	P	P	S	I	A	Y	A	Q	S	Y	K	P	W	P	Y	D	P	V	K	A	R	E	L	L	K	E	A	G	Y	P	N	G	F	S	T	T	L	W	S	S	H	N	H	S	T	A
Secondary structure
SS confidence
Disorder											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		Q	K	V	L	Q	F	T	Q	Q	Q	L	A	Q	V	G	I	K	A	Q	V	T	A	M	D	A	G	Q	R	A	A	E	V	E	G	K	G	Q	K	E	S	G	V	R	M	F	Y	T	G	W	S	A	S	T	G	E	A	D	W	A	L
Secondary structure
SS confidence
Disorder																																			?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.	.	.	.	.	460	.	.	.	.	.	.	.	.	.	470	.	.	.	.	.	.	.	.	.	480
Sequence		S	P	L	F	A	S	Q	N	W	P	P	T	L	F	N	T	A	F	Y	S	N	K	Q	V	D	D	F	L	A	Q	A	L	K	T	N	D	P	A	E	K	T	R	L	Y	K	A	A	Q	D	I	I	W	Q	E	S	P	W	I	P	L
Secondary structure
SS confidence
Disorder								?	?		?	?	?																					?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	490	.	.	.	.	.	.	.	.	.	500	.	.	.	.	.	.	.	.	.	510	.	.
Sequence		V	V	E	K	L	V	S	A	H	S	K	N	L	T	G	F	W	I	M	P	D	T	G	F	S	F	E	D	A	D	L	Q
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 1uqw chain A Region: 26 - 512 Aligned: 487 Modelled: 487 Confidence: 100.0% Identity: 98% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 1dpe chain A Region: 28 - 512 Aligned: 478 Modelled: 479 Confidence: 100.0% Identity: 27% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3tpa chain A Region: 28 - 512 Aligned: 477 Modelled: 484 Confidence: 100.0% Identity: 26% 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: 27 - 512 Aligned: 478 Modelled: 481 Confidence: 100.0% Identity: 28% 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 3o9p chain A Region: 25 - 511 Aligned: 476 Modelled: 482 Confidence: 100.0% Identity: 20% 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: 18 - 512 Aligned: 491 Modelled: 495 Confidence: 100.0% Identity: 22% 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 1jet chain A Region: 21 - 512 Aligned: 481 Modelled: 487 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: 27 - 511 Aligned: 477 Modelled: 480 Confidence: 100.0% Identity: 22% 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: 26 - 512 Aligned: 476 Modelled: 483 Confidence: 100.0% Identity: 24% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 3t66 chain A Region: 27 - 511 Aligned: 463 Modelled: 485 Confidence: 100.0% Identity: 25% 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: 27 - 512 Aligned: 462 Modelled: 472 Confidence: 100.0% Identity: 21% 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: 27 - 505 Aligned: 468 Modelled: 474 Confidence: 100.0% Identity: 20% 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: 28 - 496 Aligned: 459 Modelled: 464 Confidence: 100.0% Identity: 21% 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: 26 - 506 Aligned: 467 Modelled: 481 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: 21 - 511 Aligned: 482 Modelled: 478 Confidence: 100.0% Identity: 20% PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation Phyre2 PDB 3ry3 chain B Region: 29 - 506 Aligned: 452 Modelled: 472 Confidence: 100.0% Identity: 22% 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: 27 - 509 Aligned: 473 Modelled: 478 Confidence: 100.0% Identity: 22% Fold: Periplasmic binding protein-like II Superfamily: Periplasmic binding protein-like II Family: Phosphate binding protein-like Phyre2 PDB 2d5w chain A Region: 24 - 502 Aligned: 475 Modelled: 479 Confidence: 100.0% Identity: 16% 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: 265 - 482 Aligned: 213 Modelled: 218 Confidence: 100.0% Identity: 22% 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: 268 - 482 Aligned: 210 Modelled: 213 Confidence: 100.0% Identity: 20% 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 d1uqwa_ 2 d1dpea_ 3 c3tpaA_ 4 c3m8uA_ 5 c3o9pA_ 6 c2wokA_ 7 d1jeta_ 8 d1zlqa1 9 d1xoca1 10 c3t66A_ 11 c3rqtA_ 12 c1ztyA_ 13 c2o7jA_ 14 c2grvC_ 15 c3ftoA_ 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

Detailed template information

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

1 d1uqwa_ 100.0 98 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 2 d1dpea_ 100.0 27 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 3 c3tpaA_ 100.0 26 PDB header:heme binding protein Chain: A: PDB Molecule:heme-binding protein a; PDBTitle: structure of hbpa2 from haemophilus parasuis 4 c3m8uA_ 100.0 28 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) 5 c3o9pA_ 100.0 20 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 6 c2wokA_ 100.0 22 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 d1jeta_ 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 8 d1zlqa1 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 9 d1xoca1 100.0 24 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 10 c3t66A_ 100.0 25 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 21 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 20 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 c2o7jA_ 100.0 21 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 14 c2grvC_ 100.0 18 PDB header:biosynthetic protein Chain: C: PDB Molecule:lpqw; PDBTitle: crystal structure of lpqw 15 c3ftoA_ 100.0 20 PDB header:peptide binding protein Chain: A: PDB Molecule:oligopeptide-binding protein oppa; PDBTitle: crystal structure of oppa in a open conformation 16 c3ry3B_ 100.0 22 PDB header:transport protein Chain: B: PDB Molecule:putative solute-binding protein; PDBTitle: putative solute-binding protein from yersinia pestis. 17 d1vr5a1 100.0 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 18 c2d5wA_ 100.0 16 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 22 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 20 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 27 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 92.5 14 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 c3tmgA_ not modelled 91.5 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 24 c3l6gA_ not modelled 91.0 13 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 c2rejA_ not modelled 88.3 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 26 c3r6uA_ not modelled 72.9 8 PDB header:transport protein Chain: A: PDB Molecule:choline-binding protein; PDBTitle: crystal structure of choline binding protein opubc from bacillus2 subtilis 27 d1e5da1 not modelled 70.5 7 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 28 d1ycga1 not modelled 69.2 12 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 29 d1ja1a2 not modelled 60.3 10 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 30 d1r9la_ not modelled 60.3 10 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 31 d1b1ca_ not modelled 58.9 12 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 32 d1xs5a_ not modelled 58.5 7 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 33 c3f6sI_ not modelled 55.8 8 PDB header:electron transport Chain: I: PDB Molecule:flavodoxin; PDBTitle: desulfovibrio desulfuricans (atcc 29577) oxidized flavodoxin2 alternate conformers 34 c3fniA_ not modelled 54.1 10 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 35 c3hlyA_ not modelled 51.9 15 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. 36 c2ek8A_ not modelled 47.9 16 PDB header:hydrolase Chain: A: PDB Molecule:aminopeptidase; PDBTitle: aminopeptidase from aneurinibacillus sp. strain am-1 37 c3un6A_ not modelled 47.1 13 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 38 c3gxaA_ not modelled 46.2 10 PDB header:protein binding Chain: A: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of gna1946 39 d1f4pa_ not modelled 44.2 8 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 40 c3k2dA_ not modelled 43.7 12 PDB header:immune system Chain: A: PDB Molecule:abc-type metal ion transport system, periplasmic component; PDBTitle: crystal structure of immunogenic lipoprotein a from vibrio vulnificus 41 c3hn0A_ not modelled 43.5 21 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 42 d1bvyf_ not modelled 43.4 18 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 43 c1bvyF_ not modelled 43.4 18 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) 44 c3ir1F_ not modelled 42.8 10 PDB header:protein binding Chain: F: PDB Molecule:outer membrane lipoprotein gna1946; PDBTitle: crystal structure of lipoprotein gna1946 from neisseria2 meningitidis 45 d1sw5a_ not modelled 42.5 11 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 46 c2zykA_ not modelled 42.4 9 PDB header:sugar binding protein Chain: A: PDB Molecule:solute-binding protein; PDBTitle: crystal structure of cyclo/maltodextrin-binding protein2 complexed with gamma-cyclodextrin 47 c3pppA_ not modelled 39.9 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 48 c3tqwA_ not modelled 39.0 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 49 d5nula_ not modelled 38.1 6 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 50 c3nohA_ not modelled 37.8 16 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 51 c2o1mB_ not modelled 36.3 11 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 52 c2hnbA_ not modelled 34.3 19 PDB header:electron transport Chain: A: PDB Molecule:protein mioc; PDBTitle: solution structure of a bacterial holo-flavodoxin 53 c3d7nA_ not modelled 33.0 7 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 54 c3guxA_ not modelled 32.1 16 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 55 c1j9zB_ not modelled 31.9 11 PDB header:oxidoreductase Chain: B: PDB Molecule:nadph-cytochrome p450 reductase; PDBTitle: cypor-w677g 56 d1vmea1 not modelled 30.8 15 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 57 d1ydga_ not modelled 28.8 8 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like 58 c3ix1B_ not modelled 28.5 13 PDB header:biosynthetic protein Chain: B: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans 59 c3ix1A_ not modelled 28.5 13 PDB header:biosynthetic protein Chain: A: PDB Molecule:n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding PDBTitle: periplasmic n-formyl-4-amino-5-aminomethyl-2-methylpyrimidine binding2 protein from bacillus halodurans 60 d2fz5a1 not modelled 28.4 9 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavodoxin-related 61 d1g7da_ not modelled 26.3 16 Fold:ERP29 C domain-like Superfamily:ERP29 C domain-like Family:ERP29 C domain-like 62 d2arka1 not modelled 25.6 12 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like 63 d2vv5a2 not modelled 24.0 15 Fold:Ferredoxin-like Superfamily:Mechanosensitive channel protein MscS (YggB), C-terminal domain Family:Mechanosensitive channel protein MscS (YggB), C-terminal domain 64 c2x26A_ not modelled 23.7 10 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 65 c3oo6A_ not modelled 23.2 11 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 66 c3ombA_ not modelled 23.1 10 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 67 c2f06B_ not modelled 22.3 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of protein bt0572 from bacteroides thetaiotaomicron 68 d2a5la1 not modelled 22.2 14 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:WrbA-like 69 c3iibA_ not modelled 21.3 6 PDB header:hydrolase Chain: A: PDB Molecule:peptidase m28; PDBTitle: crystal structure of peptidase m28 precursor (yp_926796.1) from2 shewanella amazonensis sb2b at 1.70 a resolution 70 c1xt8B_ not modelled 20.9 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 71 d1uwda_ not modelled 20.5 14 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:PaaD-like 72 c3t6mA_ not modelled 20.3 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 73 c3nbmA_ not modelled 20.2 5 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. 74 c1ychD_ not modelled 20.1 7 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 75 c3kbrA_ not modelled 19.6 8 PDB header:lyase Chain: A: PDB Molecule:cyclohexadienyl dehydratase; PDBTitle: the crystal structure of cyclohexadienyl dehydratase precursor from2 pseudomonas aeruginosa pa01 76 c3e4rA_ not modelled 19.2 11 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 77 c2l2qA_ not modelled 18.9 11 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 78 c2x7vA_ not modelled 18.3 6 PDB header:hydrolase Chain: A: PDB Molecule:probable endonuclease 4; PDBTitle: crystal structure of thermotoga maritima endonuclease iv in2 the presence of zinc 79 c2q9uB_ not modelled 18.2 6 PDB header:oxidoreductase Chain: B: PDB Molecule:a-type flavoprotein; PDBTitle: crystal structure of the flavodiiron protein from giardia2 intestinalis 80 d1iiba_ not modelled 17.6 10 Fold:Phosphotyrosine protein phosphatases I-like Superfamily:PTS system IIB component-like Family:PTS system, Lactose/Cellobiose specific IIB subunit 81 c2wteB_ not modelled 16.7 9 PDB header:antiviral protein Chain: B: PDB Molecule:csa3; PDBTitle: the structure of the crispr-associated protein, csa3, from2 sulfolobus solfataricus at 1.8 angstrom resolution. 82 c3a9lB_ not modelled 16.6 20 PDB header:hydrolase Chain: B: PDB Molecule:poly-gamma-glutamate hydrolase; PDBTitle: structure of bacteriophage poly-gamma-glutamate hydrolase 83 d1vgya1 not modelled 16.0 9 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:Bacterial dinuclear zinc exopeptidases 84 d2p0la1 not modelled 15.7 13 Fold:Class II aaRS and biotin synthetases Superfamily:Class II aaRS and biotin synthetases Family:LplA-like 85 c1p99A_ not modelled 15.7 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 86 d1p99a_ not modelled 15.7 13 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 87 d1ykga1 not modelled 15.2 16 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Cytochrome p450 reductase N-terminal domain-like 88 c2ylnA_ not modelled 15.1 18 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 89 c2uvgA_ not modelled 14.9 6 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 90 c2zkiH_ not modelled 14.9 3 PDB header:transcription Chain: H: PDB Molecule:199aa long hypothetical trp repressor binding PDBTitle: crystal structure of hypothetical trp repressor binding2 protein from sul folobus tokodaii (st0872) 91 c3tc8A_ not modelled 14.7 10 PDB header:hydrolase Chain: A: PDB Molecule:leucine aminopeptidase; PDBTitle: crystal structure of a hypothetical zn-dependent exopeptidase2 (bdi_3547) from parabacteroides distasonis atcc 8503 at 1.06 a3 resolution 92 c2gh9A_ not modelled 14.6 10 PDB header:sugar binding protein Chain: A: PDB Molecule:maltose/maltodextrin-binding protein; PDBTitle: thermus thermophilus maltotriose binding protein bound with2 maltotriose 93 c3i6vA_ not modelled 14.3 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 94 c3r39A_ not modelled 13.9 18 PDB header:transport protein Chain: A: PDB Molecule:putative periplasmic binding protein; PDBTitle: crystal structure of periplasmic d-alanine abc transporter from2 salmonella enterica 95 c2v25B_ not modelled 13.7 8 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 96 d2q02a1 not modelled 13.6 10 Fold:TIM beta/alpha-barrel Superfamily:Xylose isomerase-like Family:IolI-like 97 c3n5fB_ not modelled 13.6 4 PDB header:hydrolase Chain: B: PDB Molecule:n-carbamoyl-l-amino acid hydrolase; PDBTitle: crystal structure of l-n-carbamoylase from geobacillus2 stearothermophilus cect43 98 c3kzgB_ not modelled 13.3 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 99 c3hr4C_ not modelled 13.3 10 PDB header:oxidoreductase/metal binding protein Chain: C: PDB Molecule:nitric oxide synthase, inducible; PDBTitle: human inos reductase and calmodulin complex

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