Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	K	T	I	S	I	K	V	L	F	G	I	Y	L	L	L	M	A	G	K	V	F	A	F	S	C	N	V	D	G	G	S	S	I	G	A	G	T	T	S	V	Y	V	N	L	D	P	V	I	Q	P	G	Q	N	L	V	V	D	L
Secondary structure
SS confidence
Disorder		?	?	?																											?		?	?		?	?	?											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		S	Q	H	I	S	C	W	N	D	Y	G	G	W	Y	D	T	D	H	I	N	L	V	Q	G	S	A	F	A	G	S	L	Q	S	Y	K	G	S	L	Y	W	N	N	V	T	Y	P	F	P	L	T	T	N	T	N	V	L	D	I	G	D
Secondary structure
SS confidence
Disorder											?											?	?			?	?	?		?			?					?																		?			?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		K	T	P	M	P	L	P	L	K	L	Y	I	T	P	V	G	A	A	G	G	V	V	I	K	A	G	E	V	I	A	R	I	H	M	Y	K	I	A	T	L	G	S	G	N	P	R	N	F	T	W	N	I	I	S	N	N	N	V	V	M
Secondary structure
SS confidence
Disorder		?	?	?														?	?	?	?	?			?																															?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	T	G	G	C	T	V	D	S	R	N	V	T	V	D	L	P	D	F	P	G	S	A	E	I	P	L	G	V	Y	C	S	S	E	Q	K	L	S	F	Y	L	S	G	A	T	T	D	S	S	R	Q	V	F	A	N	T	A	P	D	A
Secondary structure
SS confidence
Disorder		?		?	?	?		?	?	?	?	?							?	?	?	?	?	?	?																				?	?	?	?	?	?						?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	K	A	S	G	V	G	V	T	L	M	R	N	G	K	I	L	A	T	G	E	N	V	S	L	G	T	V	N	K	S	K	V	P	L	G	L	S	A	T	Y	G	Q	T	G	N	K	V	S	A	G	T	V	Q	S	V	I	G	V	T
Secondary structure
SS confidence
Disorder		?	?	?	?														?					?			?	?	?	?	?																?	?	?		?
Disorder confidence
		.	.	.	.
Sequence		F	I	Y	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 1klf chain P Region: 25 - 304 Aligned: 277 Modelled: 280 Confidence: 100.0% Identity: 50% PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose Phyre2 PDB 1ze3 chain H domain 1 Region: 183 - 304 Aligned: 121 Modelled: 122 Confidence: 100.0% Identity: 55% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1uwf chain A domain 1 Region: 25 - 182 Aligned: 156 Modelled: 158 Confidence: 99.9% Identity: 46% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 183 - 304 Aligned: 120 Modelled: 122 Confidence: 99.9% 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 3jwn chain K Region: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.9% Identity: 19% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3bfw chain A Region: 182 - 303 Aligned: 118 Modelled: 122 Confidence: 99.9% Identity: 26% 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 L Region: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.9% Identity: 19% PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain F Region: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.9% Identity: 19% 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: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.9% Identity: 17% PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2j2z chain B domain 1 Region: 171 - 304 Aligned: 129 Modelled: 134 Confidence: 99.9% Identity: 17% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jty chain A Region: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.8% Identity: 24% 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: 172 - 304 Aligned: 132 Modelled: 133 Confidence: 99.8% Identity: 17% PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf Phyre2 PDB 1pdk chain B Region: 180 - 304 Aligned: 122 Modelled: 125 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: 171 - 304 Aligned: 129 Modelled: 134 Confidence: 99.8% Identity: 14% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2w07 chain B Region: 180 - 304 Aligned: 109 Modelled: 125 Confidence: 99.7% Identity: 17% 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 1n12 chain A Region: 183 - 303 Aligned: 118 Modelled: 121 Confidence: 99.4% Identity: 19% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2wmp chain B Region: 182 - 303 Aligned: 111 Modelled: 122 Confidence: 87.6% Identity: 19% 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 2jna chain A domain 1 Region: 1 - 25 Aligned: 22 Modelled: 25 Confidence: 25.3% Identity: 23% Fold: Dodecin subunit-like Superfamily: YdgH-like Family: YdgH-like Phyre2 PDB 2oz4 chain A domain 1 Region: 206 - 245 Aligned: 40 Modelled: 40 Confidence: 9.7% Identity: 13% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: C2 set domains Phyre2 PDB 1na8 chain A Region: 186 - 289 Aligned: 104 Modelled: 104 Confidence: 8.0% Identity: 18% Fold: Immunoglobulin-like beta-sandwich Superfamily: Clathrin adaptor appendage domain Family: gamma-adaptin C-terminal appendage domain-like Phyre2 1 c1klfP_ 2 d1ze3h1 3 d1uwfa1 4 c3bwuF_ 5 c3jwnK_ 6 c3bfwA_ 7 c3jwnL_ 8 c3jwnF_ 9 c3jwnE_ 10 d2j2zb1 11 c2jtyA_ 12 c2jmrA_ 13 d1pdkb_ 14 d2uy6b1 15 c2w07B_ 16 d1n12a_ 17 c2wmpB_ 18 d2jnaa1 19 d2oz4a1 20 d1na8a_ 21 22 23 24

Detailed template information

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

1 c1klfP_ 100.0 50 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 2 d1ze3h1 100.0 55 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 3 d1uwfa1 99.9 46 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 4 c3bwuF_ 99.9 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) 5 c3jwnK_ 99.9 19 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 c3bfwA_ 99.9 26 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) 7 c3jwnL_ 99.9 19 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 8 c3jwnF_ 99.9 19 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 9 c3jwnE_ 99.9 17 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 10 d2j2zb1 99.9 17 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 11 c2jtyA_ 99.8 24 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 12 c2jmrA_ 99.8 17 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 13 d1pdkb_ 99.8 19 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 14 d2uy6b1 99.8 14 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 15 c2w07B_ 99.7 17 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 16 d1n12a_ 99.4 19 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 17 c2wmpB_ 87.6 19 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 d2jnaa1 25.3 23 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 19 d2oz4a1 9.7 13 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:C2 set domains 20 d1na8a_ 8.0 18 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 21 d1p4ua_ not modelled 7.6 17 Fold:Immunoglobulin-like beta-sandwich Superfamily:Clathrin adaptor appendage domain Family:gamma-adaptin C-terminal appendage domain-like 22 c1w3gA_ not modelled 7.5 16 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. 23 d1kkea2 not modelled 7.4 17 Fold:Virus attachment protein globular domain Superfamily:Virus attachment protein globular domain Family:Reovirus attachment protein sigma 1 head domain 24 c1p58F_ not modelled 6.0 33 PDB header:virus Chain: F: PDB Molecule:envelope protein m; PDBTitle: complex organization of dengue virus membrane proteins as revealed by2 9.5 angstrom cryo-em reconstruction

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