Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	M	A	C	L	C	L	A	N	I	S	W	A	T	V	C	A	N	S	T	G	V	A	E	D	E	H	Y	D	L	S	N	I	F	N	S	T	N	N	Q	P	G	Q	I	V	V	L	P	E	K	S	G	W	V	G	V	S	A	I
Secondary structure
SS confidence
Disorder		?	?	?	?				?					?																					?		?		?	?			?										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		C	P	P	G	T	L	V	N	Y	T	Y	R	S	Y	V	T	N	F	I	V	Q	E	T	I	D	N	Y	K	Y	M	Q	L	H	D	Y	L	L	G	A	M	S	L	V	D	S	V	M	D	I	Q	F	P	P	Q	N	Y	I	R	M	G
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?	?	?	?																								?									?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		T	D	P	N	V	S	Q	N	L	P	F	G	V	M	D	S	R	L	I	F	R	L	K	V	I	R	P	F	I	N	M	V	E	I	P	R	Q	V	M	F	T	V	Y	V	T	S	T	P	Y	D	P	L	V	T	P	V	Y	T	I	S
Secondary structure
SS confidence
Disorder			?				?					?	?		?	?	?	?											?	?	?	?				?												?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		F	G	G	R	V	E	V	P	Q	N	C	E	L	N	A	G	Q	I	V	E	F	D	F	G	D	I	G	A	S	L	F	S	A	A	G	P	G	N	R	P	A	G	V	M	P	Q	T	K	S	I	A	V	K	C	T	N	V	A	A	Q
Secondary structure
SS confidence
Disorder												?				?		?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	Y	L	T	M	R	L	E	A	S	A	V	S	G	Q	A	M	V	S	D	N	Q	D	L	G	F	I	V	A	D	Q	N	D	T	P	I	T	P	N	D	L	N	S	V	I	P	F	R	L	D	A	A	A	A	A	N	V	T	L	R
Secondary structure
SS confidence
Disorder													?	?	?				?	?	?	?	?									?		?	?								?	?	?				?	?		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.
Sequence		A	W	P	I	S	I	T	G	Q	K	P	T	E	G	P	F	S	A	L	G	Y	L	R	V	D	Y	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 2w07 chain B Region: 184 - 327 Aligned: 121 Modelled: 144 Confidence: 99.9% Identity: 19% 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 1klf chain P Region: 16 - 327 Aligned: 268 Modelled: 292 Confidence: 99.9% Identity: 17% PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose Phyre2 PDB 1n12 chain A Region: 189 - 326 Aligned: 128 Modelled: 138 Confidence: 99.9% Identity: 17% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3jwn chain L Region: 178 - 327 Aligned: 144 Modelled: 150 Confidence: 99.9% Identity: 17% PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain K Region: 178 - 327 Aligned: 144 Modelled: 150 Confidence: 99.9% Identity: 17% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2j2z chain B domain 1 Region: 178 - 327 Aligned: 144 Modelled: 150 Confidence: 99.8% Identity: 16% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3jwn chain F Region: 178 - 327 Aligned: 144 Modelled: 150 Confidence: 99.8% Identity: 17% PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain E Region: 178 - 327 Aligned: 144 Modelled: 150 Confidence: 99.8% Identity: 17% PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3bfw chain A Region: 188 - 326 Aligned: 131 Modelled: 139 Confidence: 99.8% 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 2jmr chain A Region: 178 - 327 Aligned: 144 Modelled: 150 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 2uy6 chain B domain 1 Region: 178 - 327 Aligned: 147 Modelled: 150 Confidence: 99.8% Identity: 18% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1pdk chain B Region: 186 - 327 Aligned: 140 Modelled: 142 Confidence: 99.8% Identity: 11% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jty chain A Region: 179 - 327 Aligned: 142 Modelled: 149 Confidence: 99.8% Identity: 20% 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 1ze3 chain H domain 1 Region: 190 - 327 Aligned: 115 Modelled: 122 Confidence: 99.6% Identity: 21% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 205 - 327 Aligned: 118 Modelled: 123 Confidence: 99.6% Identity: 14% 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 2wmp chain B Region: 191 - 326 Aligned: 118 Modelled: 136 Confidence: 84.1% Identity: 18% 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 1p5v chain B Region: 276 - 327 Aligned: 50 Modelled: 52 Confidence: 8.1% Identity: 20% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 1 c2w07B_ 2 c1klfP_ 3 d1n12a_ 4 c3jwnL_ 5 c3jwnK_ 6 d2j2zb1 7 c3jwnF_ 8 c3jwnE_ 9 c3bfwA_ 10 c2jmrA_ 11 d2uy6b1 12 d1pdkb_ 13 c2jtyA_ 14 d1ze3h1 15 c3bwuF_ 16 c2wmpB_ 17 d1p5vb_

Detailed template information

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

1 c2w07B_ 99.9 19 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 2 c1klfP_ 99.9 17 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 3 d1n12a_ 99.9 17 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 4 c3jwnL_ 99.9 17 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 5 c3jwnK_ 99.9 17 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 d2j2zb1 99.8 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 7 c3jwnF_ 99.8 17 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 8 c3jwnE_ 99.8 17 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 9 c3bfwA_ 99.8 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) 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 d2uy6b1 99.8 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 12 d1pdkb_ 99.8 11 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 c2jtyA_ 99.8 20 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 14 d1ze3h1 99.6 21 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 15 c3bwuF_ 99.6 14 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) 16 c2wmpB_ 84.1 18 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 17 d1p5vb_ 8.1 20 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits

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