Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	S	D	A	K	N	L	M	S	D	G	N	V	Q	I	V	K	T	G	E	V	I	G	A	T	Q	L	T	E	G	E	L	I	V	E	A	G	G	R	A	E	N	T	V	V	T	G	A	G	W	L	K	V	A	T	G	G	I	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?											?	?	?		?	?	?	?																															?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		K	C	T	Q	Y	G	N	N	G	T	L	S	V	S	D	G	A	I	A	T	D	I	V	Q	S	E	G	G	A	I	S	L	S	T	L	A	T	V	N	G	R	H	P	E	G	E	F	S	V	D	K	G	Y	A	C	G	L	L	L	E
Secondary structure
SS confidence
Disorder		?	?																	?	?	?															?		?					?	?	?				?	?			?	?	?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		N	G	G	N	L	R	V	L	E	G	H	R	A	E	K	I	I	L	D	Q	E	G	G	L	L	V	N	G	T	T	S	A	V	V	V	D	E	G	G	E	L	L	V	Y	P	G	G	E	A	S	N	C	E	I	N	Q	G	G	V	F
Secondary structure
SS confidence
Disorder				?					?	?	?		?	?	?	?						?	?	?				?				?	?	?	?					?					?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		M	L	A	G	K	A	S	D	T	L	L	A	G	G	T	M	N	N	L	G	G	E	D	S	D	T	I	V	E	N	G	S	I	Y	R	L	G	T	D	G	L	Q	L	Y	S	S	G	K	T	Q	N	L	S	V	N	V	G	G	R	A
Secondary structure
SS confidence
Disorder				?		?	?	?	?	?	?	?	?	?	?	?		?	?	?	?		?	?	?	?								?							?	?	?	?	?	?	?	?	?	?	?	?	?			?			?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		E	V	H	A	G	T	L	E	N	A	V	I	Q	G	G	T	V	I	L	L	S	P	T	S	A	D	E	N	F	V	V	E	E	D	R	A	P	V	E	L	T	G	S	V	A	L	L	D	G	A	S	M	I	I	G	Y	G	A	E	L
Secondary structure
SS confidence
Disorder				?				?														?			?	?		?					?	?	?	?	?	?	?	?	?	?	?	?				?													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		Q	Q	S	T	I	T	V	Q	Q	G	G	V	L	I	L	D	G	S	T	V	K	G	D	S	V	T	F	I	V	G	N	I	N	L	N	G	G	K	L	W	L	I	T	D	A	A	T	H	V	Q	L	K	V	K	R	L	R	G	E	G
Secondary structure
SS confidence
Disorder		?	?	?	?											?			?	?	?	?	?	?	?	?	?	?	?	?	?							?	?	?	?	?		?	?	?	?	?	?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.
Sequence		A	I	C	L	Q	T	S	A	K	E	I	S	P	D	F	I	N	V	K	G	E	V	T	G	D	I	H	V	E	I	T	D	A	S	R	Q	T	L	C	N	A	L	K	L	Q	P	D	E	D	G	I	G	A	T	L	Q	P	A
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 3h09 chain B Region: 230 - 411 Aligned: 180 Modelled: 182 Confidence: 99.2% Identity: 17% PDB header:hydrolase Chain: B: PDB Molecule:immunoglobulin a1 protease; PDBTitle: the structure of haemophilus influenzae iga1 protease Phyre2 PDB 1dab chain A Region: 44 - 412 Aligned: 365 Modelled: 365 Confidence: 98.9% Identity: 11% Fold: Single-stranded right-handed beta-helix Superfamily: Pectin lyase-like Family: Virulence factor P.69 pertactin Phyre2 PDB 3ml3 chain A Region: 309 - 412 Aligned: 104 Modelled: 104 Confidence: 98.6% Identity: 16% PDB header:protein transport Chain: A: PDB Molecule:outer membrane protein icsa autotransporter; PDBTitle: crystal structure of the icsa autochaperone region Phyre2 PDB 3syj chain A Region: 145 - 411 Aligned: 266 Modelled: 267 Confidence: 98.2% Identity: 9% PDB header:cell adhesion Chain: A: PDB Molecule:adhesion and penetration protein autotransporter; PDBTitle: crystal structure of the haemophilus influenzae hap adhesin Phyre2 PDB 3ak5 chain B Region: 10 - 415 Aligned: 403 Modelled: 404 Confidence: 89.9% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp; PDBTitle: hemoglobin protease (hbp) passenger missing domain-2 Phyre2 PDB 2zj6 chain A Region: 2 - 259 Aligned: 258 Modelled: 258 Confidence: 57.8% Identity: 12% PDB header:hydrolase Chain: A: PDB Molecule:lipase; PDBTitle: crystal structure of d337a mutant of pseudomonas sp. mis38 lipase Phyre2 PDB 2qub chain G Region: 1 - 245 Aligned: 243 Modelled: 245 Confidence: 28.5% Identity: 9% PDB header:hydrolase Chain: G: PDB Molecule:extracellular lipase; PDBTitle: crystal structure of extracellular lipase lipa from serratia2 marcescens Phyre2 PDB 1kap chain P domain 1 Region: 1 - 50 Aligned: 50 Modelled: 50 Confidence: 18.5% Identity: 20% Fold: Single-stranded right-handed beta-helix Superfamily: beta-Roll Family: Serralysin-like metalloprotease, C-terminal domain Phyre2 PDB 2agm chain A Region: 1 - 65 Aligned: 65 Modelled: 65 Confidence: 16.2% Identity: 15% PDB header:isomerase Chain: A: PDB Molecule:poly(beta-d-mannuronate) c5 epimerase 4; PDBTitle: solution structure of the r-module from alge4 Phyre2 1 c3h09B_ 2 d1daba_ 3 c3ml3A_ 4 c3syjA_ 5 c3ak5B_ 6 c2zj6A_ 7 c2qubG_ 8 d1kapp1 9 c2agmA_

Detailed template information

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

1 c3h09B_ 99.2 17 PDB header:hydrolase Chain: B: PDB Molecule:immunoglobulin a1 protease; PDBTitle: the structure of haemophilus influenzae iga1 protease 2 d1daba_ 98.9 11 Fold:Single-stranded right-handed beta-helix Superfamily:Pectin lyase-like Family:Virulence factor P.69 pertactin 3 c3ml3A_ 98.6 16 PDB header:protein transport Chain: A: PDB Molecule:outer membrane protein icsa autotransporter; PDBTitle: crystal structure of the icsa autochaperone region 4 c3syjA_ 98.2 9 PDB header:cell adhesion Chain: A: PDB Molecule:adhesion and penetration protein autotransporter; PDBTitle: crystal structure of the haemophilus influenzae hap adhesin 5 c3ak5B_ 89.9 14 PDB header:hydrolase Chain: B: PDB Molecule:hemoglobin-binding protease hbp; PDBTitle: hemoglobin protease (hbp) passenger missing domain-2 6 c2zj6A_ 57.8 12 PDB header:hydrolase Chain: A: PDB Molecule:lipase; PDBTitle: crystal structure of d337a mutant of pseudomonas sp. mis38 lipase 7 c2qubG_ 28.5 9 PDB header:hydrolase Chain: G: PDB Molecule:extracellular lipase; PDBTitle: crystal structure of extracellular lipase lipa from serratia2 marcescens 8 d1kapp1 18.5 20 Fold:Single-stranded right-handed beta-helix Superfamily:beta-Roll Family:Serralysin-like metalloprotease, C-terminal domain 9 c2agmA_ 16.2 15 PDB header:isomerase Chain: A: PDB Molecule:poly(beta-d-mannuronate) c5 epimerase 4; PDBTitle: solution structure of the r-module from alge4

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