Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	Q	W	I	A	A	L	L	L	M	L	I	P	G	V	Q	A	A	K	P	Q	K	V	T	L	M	V	D	D	V	P	V	A	Q	V	L	Q	A	L	A	E	Q	E	K	L	N	L	V	V	S	P	D	V	S	G	T	V	S	L
Secondary structure
SS confidence
Disorder		?	?	?										?	?	?	?	?	?	?	?	?																																?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	L	T	D	V	P	W	K	Q	A	L	Q	T	V	V	K	S	A	G	L	I	T	R	Q	E	G	N	I	L	S	V	H	S	I	A	W	Q	N	N	N	I	A	R	Q	E	A	E	Q	A	R	A	Q	A	N	L	P	L	E	N	R
Secondary structure
SS confidence
Disorder																				?	?															?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	I	T	L	Q	Y	A	D	A	G	E	L	A	K	A	G	E	K	L	L	S	A	K	G	S	M	T	V	D	K	R	T	N	R	L	L	L	R	D	N	K	T	A	L	S	A	L	E	Q	W	V	A	Q	M	D	L	P	V	G	Q
Secondary structure
SS confidence
Disorder									?											?	?	?	?	?	?																																		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	E	L	S	A	H	I	V	T	I	N	E	K	S	L	R	E	L	G	V	K	W	T	L	A	D	A	Q	H	A	G	G	V	G	Q	V	T	T	L	G	S	D	L	S	V	A	T	A	T	T	H	V	G	F	N	I	G	R	I	N
Secondary structure
SS confidence
Disorder																										?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		G	R	L	L	D	L	E	L	S	A	L	E	Q	K	Q	Q	L	D	I	I	A	S	P	R	L	L	A	S	H	L	Q	P	A	S	I	K	Q	G	S	E	I	P	Y	Q	V	S	S	G	E	S	G	A	T	S	V	E	F	K	E	A
Secondary structure
SS confidence
Disorder		?														?	?	?																														?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		V	L	G	M	E	V	T	P	T	V	L	Q	K	G	R	I	R	L	K	L	H	I	S	Q	N	V	P	G	Q	V	L	Q	Q	A	D	G	E	V	L	A	I	D	K	Q	E	I	E	T	Q	V	E	V	K	S	G	E	T	L	A	L
Secondary structure
SS confidence
Disorder															?										?	?	?	?	?	?	?	?	?	?	?	?	?	?																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.
Sequence		G	G	I	F	T	R	K	N	K	S	G	Q	D	S	V	P	L	L	G	D	I	P	W	F	G	Q	L	F	R	H	D	G	K	E	D	E	R	R	E	L	V	V	F	I	T	P	R	L	V	S	S	E
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 3gr5 chain A Region: 21 - 180 Aligned: 140 Modelled: 140 Confidence: 99.9% Identity: 16% PDB header:membrane protein Chain: A: PDB Molecule:escc; PDBTitle: periplasmic domain of the outer membrane secretin escc from2 enteropathogenic e.coli (epec) Phyre2 PDB 2y9k chain G Region: 26 - 176 Aligned: 131 Modelled: 131 Confidence: 99.9% Identity: 17% PDB header:protein transport Chain: G: PDB Molecule:protein invg; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution Phyre2 PDB 3oss chain D Region: 23 - 176 Aligned: 149 Modelled: 154 Confidence: 99.8% Identity: 12% PDB header:protein transport Chain: D: PDB Molecule:type 2 secretion system, secretin gspd; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system Phyre2 PDB 2y3m chain A Region: 20 - 176 Aligned: 131 Modelled: 136 Confidence: 99.8% Identity: 31% PDB header:transport protein Chain: A: PDB Molecule:protein transport protein hofq; PDBTitle: structure of the extra-membranous domain of the secretin2 hofq from actinobacillus actinomycetemcomitans Phyre2 PDB 3ezj chain A Region: 24 - 198 Aligned: 151 Modelled: 157 Confidence: 99.7% Identity: 14% PDB header:protein transport Chain: A: PDB Molecule:general secretion pathway protein gspd; PDBTitle: crystal structure of the n-terminal domain of the secretin gspd from2 etec determined with the assistance of a nanobody Phyre2 PDB 2a02 chain A Region: 21 - 99 Aligned: 79 Modelled: 79 Confidence: 98.9% Identity: 25% PDB header:membrane protein, metal transport Chain: A: PDB Molecule:ferric-pseudobactin 358 receptor; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter pupa from3 pseudomonas putida. Phyre2 PDB 2iah chain A Region: 22 - 134 Aligned: 113 Modelled: 113 Confidence: 97.5% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:ferripyoverdine receptor; PDBTitle: crystal structure of the ferripyoverdine receptor of the outer2 membrane of pseudomonas aeruginosa bound to ferripyoverdine. Phyre2 PDB 1zzv chain A Region: 26 - 100 Aligned: 75 Modelled: 75 Confidence: 97.3% Identity: 16% PDB header:membrane protein, metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter feca from3 escherichia coli. Phyre2 PDB 2d1u chain A Region: 26 - 119 Aligned: 94 Modelled: 94 Confidence: 97.1% Identity: 15% PDB header:metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution strcuture of the periplasmic signaling domain of2 feca from escherichia coli Phyre2 PDB 3ady chain A Region: 17 - 84 Aligned: 67 Modelled: 68 Confidence: 95.1% Identity: 16% PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella Phyre2 PDB 3cdd chain A domain 2 Region: 27 - 93 Aligned: 67 Modelled: 67 Confidence: 93.9% Identity: 12% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 3cdd chain D Region: 27 - 101 Aligned: 75 Modelled: 75 Confidence: 93.5% Identity: 12% PDB header:structural protein Chain: D: PDB Molecule:prophage muso2, 43 kda tail protein; PDBTitle: crystal structure of prophage muso2, 43 kda tail protein from2 shewanella oneidensis Phyre2 PDB 3d37 chain A Region: 28 - 99 Aligned: 72 Modelled: 72 Confidence: 85.5% Identity: 21% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tail protein, 43 kda; PDBTitle: the crystal structure of the tail protein from neisseria meningitidis2 mc58 Phyre2 PDB 1wru chain A Region: 27 - 99 Aligned: 73 Modelled: 73 Confidence: 75.4% Identity: 10% PDB header:structural protein Chain: A: PDB Molecule:43 kda tail protein; PDBTitle: structure of central hub elucidated by x-ray analysis of gene product2 44; baseplate component of bacteriophage mu Phyre2 PDB 3d37 chain A domain 1 Region: 28 - 92 Aligned: 65 Modelled: 65 Confidence: 75.0% Identity: 22% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 1wru chain A domain 2 Region: 27 - 93 Aligned: 67 Modelled: 67 Confidence: 69.9% Identity: 12% Fold: Phage tail proteins Superfamily: Phage tail proteins Family: Baseplate protein-like Phyre2 PDB 1b35 chain D Region: 373 - 397 Aligned: 25 Modelled: 25 Confidence: 21.1% Identity: 20% PDB header:virus Chain: D: PDB Molecule:protein (cricket paralysis virus, vp4); PDBTitle: cricket paralysis virus (crpv) Phyre2 PDB 3ec1 chain A Region: 349 - 365 Aligned: 17 Modelled: 17 Confidence: 13.8% Identity: 29% PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:yqeh gtpase; PDBTitle: structure of yqeh gtpase from geobacillus stearothermophilus2 (an atnos1 / atnoa1 ortholog) Phyre2 PDB 2e44 chain A Region: 22 - 99 Aligned: 74 Modelled: 78 Confidence: 13.6% Identity: 18% PDB header:rna binding protein Chain: A: PDB Molecule:insulin-like growth factor 2 mrna binding PDBTitle: solution structure of rna binding domain in insulin-like2 growth factor 2 mrna binding protein 3 Phyre2 PDB 3h2y chain A Region: 349 - 365 Aligned: 17 Modelled: 17 Confidence: 13.1% Identity: 18% PDB header:hydrolase Chain: A: PDB Molecule:gtpase family protein; PDBTitle: crystal structure of yqeh gtpase from bacillus anthracis with dgdp2 bound Phyre2 1 c3gr5A_ 2 c2y9kG_ 3 c3ossD_ 4 c2y3mA_ 5 c3ezjA_ 6 c2a02A_ 7 c2iahA_ 8 c1zzvA_ 9 c2d1uA_ 10 c3adyA_ 11 d3cdda2 12 c3cddD_ 13 c3d37A_ 14 c1wruA_ 15 d3d37a1 16 d1wrua2 17 c1b35D_ 18 c3ec1A_ 19 c2e44A_ 20 c3h2yA_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 c3gr5A_ 99.9 16 PDB header:membrane protein Chain: A: PDB Molecule:escc; PDBTitle: periplasmic domain of the outer membrane secretin escc from2 enteropathogenic e.coli (epec) 2 c2y9kG_ 99.9 17 PDB header:protein transport Chain: G: PDB Molecule:protein invg; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution 3 c3ossD_ 99.8 12 PDB header:protein transport Chain: D: PDB Molecule:type 2 secretion system, secretin gspd; PDBTitle: the crystal structure of enterotoxigenic escherichia coli gspc-gspd2 complex from the type ii secretion system 4 c2y3mA_ 99.8 31 PDB header:transport protein Chain: A: PDB Molecule:protein transport protein hofq; PDBTitle: structure of the extra-membranous domain of the secretin2 hofq from actinobacillus actinomycetemcomitans 5 c3ezjA_ 99.7 14 PDB header:protein transport Chain: A: PDB Molecule:general secretion pathway protein gspd; PDBTitle: crystal structure of the n-terminal domain of the secretin gspd from2 etec determined with the assistance of a nanobody 6 c2a02A_ 98.9 25 PDB header:membrane protein, metal transport Chain: A: PDB Molecule:ferric-pseudobactin 358 receptor; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter pupa from3 pseudomonas putida. 7 c2iahA_ 97.5 12 PDB header:membrane protein Chain: A: PDB Molecule:ferripyoverdine receptor; PDBTitle: crystal structure of the ferripyoverdine receptor of the outer2 membrane of pseudomonas aeruginosa bound to ferripyoverdine. 8 c1zzvA_ 97.3 16 PDB header:membrane protein, metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution nmr structure of the periplasmic signaling domain2 of the outer membrane iron transporter feca from3 escherichia coli. 9 c2d1uA_ 97.1 15 PDB header:metal transport Chain: A: PDB Molecule:iron(iii) dicitrate transport protein feca; PDBTitle: solution strcuture of the periplasmic signaling domain of2 feca from escherichia coli 10 c3adyA_ 95.1 16 PDB header:proton transport Chain: A: PDB Molecule:dotd; PDBTitle: crystal structure of dotd from legionella 11 d3cdda2 93.9 12 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 12 c3cddD_ 93.5 12 PDB header:structural protein Chain: D: PDB Molecule:prophage muso2, 43 kda tail protein; PDBTitle: crystal structure of prophage muso2, 43 kda tail protein from2 shewanella oneidensis 13 c3d37A_ 85.5 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tail protein, 43 kda; PDBTitle: the crystal structure of the tail protein from neisseria meningitidis2 mc58 14 c1wruA_ 75.4 10 PDB header:structural protein Chain: A: PDB Molecule:43 kda tail protein; PDBTitle: structure of central hub elucidated by x-ray analysis of gene product2 44; baseplate component of bacteriophage mu 15 d3d37a1 75.0 22 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 16 d1wrua2 69.9 12 Fold:Phage tail proteins Superfamily:Phage tail proteins Family:Baseplate protein-like 17 c1b35D_ 21.1 20 PDB header:virus Chain: D: PDB Molecule:protein (cricket paralysis virus, vp4); PDBTitle: cricket paralysis virus (crpv) 18 c3ec1A_ 13.8 29 PDB header:hydrolase, signaling protein Chain: A: PDB Molecule:yqeh gtpase; PDBTitle: structure of yqeh gtpase from geobacillus stearothermophilus2 (an atnos1 / atnoa1 ortholog) 19 c2e44A_ 13.6 18 PDB header:rna binding protein Chain: A: PDB Molecule:insulin-like growth factor 2 mrna binding PDBTitle: solution structure of rna binding domain in insulin-like2 growth factor 2 mrna binding protein 3 20 c3h2yA_ 13.1 18 PDB header:hydrolase Chain: A: PDB Molecule:gtpase family protein; PDBTitle: crystal structure of yqeh gtpase from bacillus anthracis with dgdp2 bound 21 d1v95a_ not modelled 10.0 14 Fold:Anticodon-binding domain-like Superfamily:Class II aaRS ABD-related Family:Anticodon-binding domain of Class II aaRS 22 d1k25a2 not modelled 8.5 14 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 23 c2j8aA_ not modelled 8.3 14 PDB header:transferase Chain: A: PDB Molecule:histone-lysine n-methyltransferase, h3 lysine-4 PDBTitle: x-ray structure of the n-terminus rrm domain of set1 24 d1jqga2 not modelled 7.8 6 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Pancreatic carboxypeptidase, activation domain 25 d1ueba3 not modelled 7.2 17 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 26 c3gs9A_ not modelled 7.0 5 PDB header:structural protein Chain: A: PDB Molecule:protein gp18; PDBTitle: crystal structure of prophage tail protein gp18 (np_465809.1) from2 listeria monocytogenes egd-e at 1.70 a resolution 27 c3ov5A_ not modelled 6.7 22 PDB header:protein transport Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: atomic structure of the xanthomonas citri virb7 globular domain. 28 d1pyya2 not modelled 6.0 11 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain 29 d1rp5a2 not modelled 5.3 14 Fold:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Superfamily:Penicillin-binding protein 2x (pbp-2x), c-terminal domain Family:Penicillin-binding protein 2x (pbp-2x), c-terminal domain

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