Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	R	Y	L	L	I	V	I	T	F	F	M	G	F	S	S	L	P	A	W	A	M	D	C	Y	A	E	H	E	G	G	N	T	V	V	I	G	Y	V	P	R	I	S	I	P	S	D	G	K	K	G	D	K	I	W	Q	S	S	E	Y
Secondary structure
SS confidence
Disorder		?	?	?												?	?	?													?	?	?			?	?	?	?	?	?	?	?			?	?				?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	M	N	V	F	C	N	N	A	L	P	G	P	S	P	G	E	E	Y	P	S	A	W	A	N	I	M	M	L	L	A	S	G	Q	D	F	Y	N	Q	N	S	Y	T	F	G	V	T	Y	N	G	V	D	Y	D	S	T	S	P	L	P
Secondary structure
SS confidence
Disorder												?	?	?												?			?	?	?	?	?	?	?	?	?	?	?	?														?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	A	A	P	V	C	I	D	I	K	G	A	G	T	F	G	N	G	Y	K	K	P	A	V	C	S	G	G	P	E	P	Q	L	S	V	T	F	P	V	R	V	Q	L	Y	I	K	L	A	K	N	A	N	K	V	N	K	K	L	V	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?								?								?						?	?	?	?	?	?																	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	D	E	Y	I	A	L	E	F	K	G	M	S	G	A	G	A	I	E	V	D	K	N	L	T	F	R	I	R	G	L	N	N	I	H	V	L	D	C	F	V	N	V	D	L	E	P	A	D	G	V	V	D	F	G	K	I	N	S	R
Secondary structure
SS confidence
Disorder		?												?	?	?	?	?	?	?																						?	?				?	?	?		?	?		?						?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	I	K	N	T	S	V	S	E	T	F	S	V	V	M	T	K	D	P	G	A	A	C	T	E	Q	F	N	I	L	G	S	F	F	T	T	D	I	L	S	D	Y	S	H	L	D	I	G	N	G	L	L	L	K	I	F	H	N	D	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?								?	?	?		?	?	?	?	?										?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?							?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.
Sequence		T	A	T	E	F	N	R	F	S	Q	F	A	S	F	S	S	S	S	A	P	S	V	T	A	P	F	R	A	E	L	S	A	N	P	A	E	T	V	V	E	G	P	F	S	K	D	V	I	L	K	I	T	Y	N
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 1klf chain P Region: 22 - 353 Aligned: 277 Modelled: 289 Confidence: 100.0% Identity: 13% PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose Phyre2 PDB 3bfw chain A Region: 222 - 354 Aligned: 127 Modelled: 133 Confidence: 99.9% Identity: 14% PDB header:structural protein/structural protein Chain: A: PDB Molecule:protein fimg; PDBTitle: crystal structure of truncated fimg (fimgt) in complex with the donor2 strand peptide of fimf (dsf) Phyre2 PDB 3jwn chain K Region: 215 - 353 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain L Region: 215 - 353 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain E Region: 215 - 353 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain F Region: 215 - 353 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 1ze3 chain H domain 1 Region: 222 - 353 Aligned: 119 Modelled: 129 Confidence: 99.8% Identity: 12% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2w07 chain B Region: 215 - 354 Aligned: 121 Modelled: 140 Confidence: 99.8% Identity: 18% PDB header:cell adhesion Chain: B: PDB Molecule:minor pilin subunit papf; PDBTitle: structural determinants of polymerization reactivity of the2 p pilus adaptor subunit papf Phyre2 PDB 2jty chain A Region: 215 - 353 Aligned: 136 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:structural protein Chain: A: PDB Molecule:type-1 fimbrial protein, a chain; PDBTitle: self-complemented variant of fima, the main subunit of type 1 pilus Phyre2 PDB 2jmr chain A Region: 215 - 353 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 18% PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf Phyre2 PDB 2j2z chain B domain 1 Region: 215 - 353 Aligned: 135 Modelled: 136 Confidence: 99.8% Identity: 11% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1pdk chain B Region: 216 - 353 Aligned: 138 Modelled: 138 Confidence: 99.8% Identity: 19% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2uy6 chain B domain 1 Region: 215 - 353 Aligned: 136 Modelled: 139 Confidence: 99.8% Identity: 16% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 222 - 353 Aligned: 122 Modelled: 132 Confidence: 99.8% Identity: 16% PDB header:chaperone, structural, membrane protein Chain: F: PDB Molecule:protein fimf; PDBTitle: crystal structure of the ternary complex of fimd (n-terminal domain,2 fimdn) with fimc and the n-terminally truncated pilus subunit fimf3 (fimft) Phyre2 PDB 1n12 chain A Region: 219 - 354 Aligned: 132 Modelled: 136 Confidence: 99.6% Identity: 17% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1w3g chain A Region: 302 - 354 Aligned: 51 Modelled: 53 Confidence: 32.0% Identity: 18% PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. Phyre2 PDB 2wmp chain B Region: 223 - 353 Aligned: 118 Modelled: 131 Confidence: 26.1% Identity: 12% PDB header:chaperone Chain: B: PDB Molecule:papg protein; PDBTitle: structure of the e. coli chaperone papd in complex with the pilin2 domain of the papgii adhesin Phyre2 PDB 1uwf chain A domain 1 Region: 22 - 216 Aligned: 156 Modelled: 170 Confidence: 22.1% Identity: 15% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jna chain A domain 1 Region: 1 - 22 Aligned: 22 Modelled: 22 Confidence: 11.8% Identity: 18% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 1p4u chain A Region: 225 - 344 Aligned: 120 Modelled: 120 Confidence: 11.0% Identity: 11% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 1 c1klfP_ 2 c3bfwA_ 3 c3jwnK_ 4 c3jwnL_ 5 c3jwnE_ 6 c3jwnF_ 7 d1ze3h1 8 c2w07B_ 9 c2jtyA_ 10 c2jmrA_ 11 d2j2zb1 12 d1pdkb_ 13 d2uy6b1 14 c3bwuF_ 15 d1n12a_ 16 c1w3gA_ 17 c2wmpB_ 18 d1uwfa1 19 d2jnaa1 20 d1p4ua_ 21 22 23 24 25

Detailed template information

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

1 c1klfP_ 100.0 13 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 2 c3bfwA_ 99.9 14 PDB header:structural protein/structural protein Chain: A: PDB Molecule:protein fimg; PDBTitle: crystal structure of truncated fimg (fimgt) in complex with the donor2 strand peptide of fimf (dsf) 3 c3jwnK_ 99.8 18 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 4 c3jwnL_ 99.8 18 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 5 c3jwnE_ 99.8 18 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 c3jwnF_ 99.8 18 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 7 d1ze3h1 99.8 12 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 8 c2w07B_ 99.8 18 PDB header:cell adhesion Chain: B: PDB Molecule:minor pilin subunit papf; PDBTitle: structural determinants of polymerization reactivity of the2 p pilus adaptor subunit papf 9 c2jtyA_ 99.8 18 PDB header:structural protein Chain: A: PDB Molecule:type-1 fimbrial protein, a chain; PDBTitle: self-complemented variant of fima, the main subunit of type 1 pilus 10 c2jmrA_ 99.8 18 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 11 d2j2zb1 99.8 11 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 12 d1pdkb_ 99.8 19 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 d2uy6b1 99.8 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 14 c3bwuF_ 99.8 16 PDB header:chaperone, structural, membrane protein Chain: F: PDB Molecule:protein fimf; PDBTitle: crystal structure of the ternary complex of fimd (n-terminal domain,2 fimdn) with fimc and the n-terminally truncated pilus subunit fimf3 (fimft) 15 d1n12a_ 99.6 17 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 16 c1w3gA_ 32.0 18 PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. 17 c2wmpB_ 26.1 12 PDB header:chaperone Chain: B: PDB Molecule:papg protein; PDBTitle: structure of the e. coli chaperone papd in complex with the pilin2 domain of the papgii adhesin 18 d1uwfa1 22.1 15 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 19 d2jnaa1 11.8 18 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 20 d1p4ua_ 11.0 11 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 21 d1na8a_ not modelled 9.6 10 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 22 d1gywb_ not modelled 6.5 7 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 23 c3l48B_ not modelled 6.2 18 PDB header:transport protein Chain: B: PDB Molecule:outer membrane usher protein papc; PDBTitle: crystal structure of the c-terminal domain of the papc usher 24 d1gyva_ not modelled 6.1 5 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 25 c3ff7B_ not modelled 6.0 33 PDB header:cell adhesion/immunue system Chain: B: PDB Molecule:epithelial cadherin; PDBTitle: structure of nk cell receptor klrg1 bound to e-cadherin

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