Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	A	G	K	G	L	L	L	V	I	C	L	L	F	L	P	L	K	S	A	M	A	L	N	C	Y	F	G	T	S	G	G	A	V	E	K	S	E	A	I	Q	P	F	A	V	P	G	N	A	K	P	G	D	K	I	W	E	S	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?											?			?													?					?	?	?	?	?	?	?	?			?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		D	I	K	I	P	V	Y	C	D	N	N	T	N	G	N	F	E	S	E	H	V	Y	A	W	V	N	P	Y	P	G	V	Q	D	R	Y	Y	Q	L	G	V	T	Y	N	G	V	D	Y	D	A	S	L	G	K	S	R	I	D	T	N	Q
Secondary structure
SS confidence
Disorder		?											?	?	?	?														?	?	?	?	?																			?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		C	I	D	S	K	N	I	D	I	Y	T	P	E	Q	I	I	A	M	G	W	Q	N	K	I	C	S	G	D	P	A	N	I	H	M	S	R	T	F	L	A	R	M	R	L	Y	V	K	I	R	E	M	P	P	H	D	Y	Q	S	T	L
Secondary structure
SS confidence
Disorder		?		?	?	?	?	?	?	?	?	?	?	?	?																																		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		S	D	Y	I	V	V	Q	F	D	G	A	G	S	V	N	E	D	P	T	A	Q	N	L	K	Y	H	I	T	G	L	E	N	I	R	V	L	D	C	S	V	N	F	S	I	S	P	E	T	Q	V	I	D	F	G	K	F	N	L	L	D
Secondary structure
SS confidence
Disorder													?	?	?	?	?	?	?																						?	?				?	?	?		?	?		?						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	R	R	H	T	M	S	K	T	F	S	I	K	T	T	K	S	Q	N	D	Q	C	T	D	G	F	K	V	S	S	S	F	Y	T	E	E	T	L	V	E	E	D	K	A	L	L	I	G	N	G	L	K	L	R	L	L	D	E	N	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?								?	?	?	?	?	?	?	?	?	?									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?							?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.
Sequence		S	P	Y	T	F	N	K	Y	A	E	Y	A	D	F	T	S	D	M	L	V	Y	E	K	T	Y	T	A	E	L	S	S	I	P	G	T	P	I	E	A	G	P	F	D	T	V	V	L	F	K	I	N	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: 24 - 352 Aligned: 277 Modelled: 293 Confidence: 100.0% Identity: 12% 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: 221 - 353 Aligned: 127 Modelled: 133 Confidence: 99.9% Identity: 9% 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 2jty chain A Region: 214 - 352 Aligned: 137 Modelled: 139 Confidence: 99.9% Identity: 12% 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 3jwn chain L Region: 214 - 352 Aligned: 138 Modelled: 139 Confidence: 99.9% Identity: 16% 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: 214 - 352 Aligned: 138 Modelled: 139 Confidence: 99.9% Identity: 16% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 1ze3 chain H domain 1 Region: 221 - 352 Aligned: 119 Modelled: 132 Confidence: 99.9% Identity: 10% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3jwn chain E Region: 214 - 352 Aligned: 138 Modelled: 139 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 3jwn chain F Region: 214 - 352 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 16% PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2w07 chain B Region: 215 - 353 Aligned: 120 Modelled: 139 Confidence: 99.8% Identity: 15% 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 2jmr chain A Region: 214 - 352 Aligned: 138 Modelled: 139 Confidence: 99.8% Identity: 16% PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf Phyre2 PDB 3bwu chain F Region: 237 - 352 Aligned: 115 Modelled: 116 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 2j2z chain B domain 1 Region: 214 - 352 Aligned: 136 Modelled: 139 Confidence: 99.8% Identity: 15% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1pdk chain B Region: 215 - 352 Aligned: 137 Modelled: 138 Confidence: 99.8% Identity: 12% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2uy6 chain B domain 1 Region: 214 - 352 Aligned: 137 Modelled: 139 Confidence: 99.7% Identity: 18% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1n12 chain A Region: 220 - 353 Aligned: 130 Modelled: 134 Confidence: 99.6% Identity: 12% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1w3g chain A Region: 302 - 353 Aligned: 51 Modelled: 52 Confidence: 27.1% Identity: 20% 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 3ff7 chain B Region: 41 - 58 Aligned: 18 Modelled: 18 Confidence: 15.4% Identity: 22% PDB header:cell adhesion/immunue system Chain: B: PDB Molecule:epithelial cadherin; PDBTitle: structure of nk cell receptor klrg1 bound to e-cadherin Phyre2 PDB 2wmp chain B Region: 222 - 352 Aligned: 117 Modelled: 131 Confidence: 13.1% Identity: 10% 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 3l48 chain B Region: 293 - 310 Aligned: 18 Modelled: 18 Confidence: 12.2% Identity: 17% 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 Phyre2 PDB 1uwf chain A domain 1 Region: 24 - 217 Aligned: 158 Modelled: 162 Confidence: 11.4% Identity: 15% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 1 c1klfP_ 2 c3bfwA_ 3 c2jtyA_ 4 c3jwnL_ 5 c3jwnK_ 6 d1ze3h1 7 c3jwnE_ 8 c3jwnF_ 9 c2w07B_ 10 c2jmrA_ 11 c3bwuF_ 12 d2j2zb1 13 d1pdkb_ 14 d2uy6b1 15 d1n12a_ 16 c1w3gA_ 17 c3ff7B_ 18 c2wmpB_ 19 c3l48B_ 20 d1uwfa1 21 22 23 24 25 26

Detailed template information

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

1 c1klfP_ 100.0 12 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 2 c3bfwA_ 99.9 9 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 c2jtyA_ 99.9 12 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 4 c3jwnL_ 99.9 16 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 5 c3jwnK_ 99.9 16 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 d1ze3h1 99.9 10 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 7 c3jwnE_ 99.8 17 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 8 c3jwnF_ 99.8 16 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 9 c2w07B_ 99.8 15 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 10 c2jmrA_ 99.8 16 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 11 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) 12 d2j2zb1 99.8 15 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 d1pdkb_ 99.8 12 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 14 d2uy6b1 99.7 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 15 d1n12a_ 99.6 12 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 16 c1w3gA_ 27.1 20 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 c3ff7B_ 15.4 22 PDB header:cell adhesion/immunue system Chain: B: PDB Molecule:epithelial cadherin; PDBTitle: structure of nk cell receptor klrg1 bound to e-cadherin 18 c2wmpB_ 13.1 10 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 19 c3l48B_ 12.2 17 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 20 d1uwfa1 11.4 15 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 21 c1wuzA_ not modelled 7.9 25 PDB header:cell adhesion Chain: A: PDB Molecule:pcdha4 protein; PDBTitle: structure of ec1 domain of cnr 22 c2xetB_ not modelled 7.6 21 PDB header:transport protein Chain: B: PDB Molecule:f1 capsule-anchoring protein; PDBTitle: conserved hydrophobic clusters on the surface of the caf1a usher2 c-terminal domain are important for f1 antigen assembly 23 c3arcl_ not modelled 6.2 40 PDB header:electron transport, photosynthesis Chain: L: PDB Molecule:photosystem ii reaction center protein l; PDBTitle: crystal structure of oxygen-evolving photosystem ii at 1.9 angstrom2 resolution 24 d1ehkb2 not modelled 5.9 20 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 25 d2jnaa1 not modelled 5.3 19 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 26 c2dycA_ not modelled 5.3 17 PDB header:sugar binding protein Chain: A: PDB Molecule:galectin-4; PDBTitle: crystal structure of the n-terminal domain of mouse galectin-4

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