Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	G	G	V	M	S	Q	K	F	V	V	G	A	G	L	L	V	C	S	V	C	S	L	S	A	M	A	G	S	K	P	V	D	L	I	L	R	V	L	V	D	A	P	P	P	C	S	I	K	G	S	Q	V	E	F	G	N	M	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?															?	?	?	?	?	?	?	?		?																		?		?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	D	N	V	D	G	T	N	Y	R	Q	D	A	K	Y	T	L	N	C	T	N	S	L	A	N	D	L	R	M	Q	L	K	G	N	T	S	T	I	N	G	E	T	V	L	S	T	N	I	T	G	L	G	I	R	I	E	N	S	A	D
Secondary structure
SS confidence
Disorder		?		?	?	?	?	?																	?										?	?	?	?	?	?	?					?	?												?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170
Sequence		N	S	L	F	A	V	G	E	N	S	W	T	P	F	N	I	N	N	Q	P	Q	L	K	A	V	P	V	K	A	S	G	A	Q	L	A	A	G	E	F	N	A	S	L	T	M	V	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 3jwn chain L Region: 31 - 170 Aligned: 139 Modelled: 140 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 K Region: 31 - 170 Aligned: 139 Modelled: 140 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 3jwn chain E Region: 31 - 170 Aligned: 139 Modelled: 140 Confidence: 99.9% Identity: 19% 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: 31 - 170 Aligned: 139 Modelled: 140 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 2w07 chain B Region: 41 - 169 Aligned: 117 Modelled: 129 Confidence: 99.9% Identity: 27% 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: 31 - 170 Aligned: 139 Modelled: 140 Confidence: 99.9% 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: 35 - 170 Aligned: 136 Modelled: 136 Confidence: 99.9% Identity: 20% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2j2z chain B domain 1 Region: 35 - 170 Aligned: 135 Modelled: 136 Confidence: 99.9% Identity: 18% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jty chain A Region: 26 - 170 Aligned: 143 Modelled: 145 Confidence: 99.9% 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 3bfw chain A Region: 44 - 169 Aligned: 124 Modelled: 126 Confidence: 99.8% Identity: 11% 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 1n12 chain A Region: 45 - 169 Aligned: 125 Modelled: 125 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: 41 - 170 Aligned: 130 Modelled: 130 Confidence: 99.8% Identity: 15% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 58 - 170 Aligned: 112 Modelled: 113 Confidence: 99.7% Identity: 20% 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 1ze3 chain H domain 1 Region: 46 - 170 Aligned: 114 Modelled: 125 Confidence: 99.7% Identity: 18% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1klf chain P Region: 34 - 170 Aligned: 126 Modelled: 129 Confidence: 99.7% Identity: 17% PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose Phyre2 PDB 3qbt chain H Region: 45 - 111 Aligned: 61 Modelled: 67 Confidence: 28.9% Identity: 15% PDB header:protein transport/hydrolase Chain: H: PDB Molecule:inositol polyphosphate 5-phosphatase ocrl-1; PDBTitle: crystal structure of ocrl1 540-678 in complex with rab8a:gppnhp Phyre2 1 c3jwnL_ 2 c3jwnK_ 3 c3jwnE_ 4 c3jwnF_ 5 c2w07B_ 6 c2jmrA_ 7 d2uy6b1 8 d2j2zb1 9 c2jtyA_ 10 c3bfwA_ 11 d1n12a_ 12 d1pdkb_ 13 c3bwuF_ 14 d1ze3h1 15 c1klfP_ 16 c3qbtH_

Detailed template information

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

1 c3jwnL_ 99.9 19 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 2 c3jwnK_ 99.9 19 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 3 c3jwnE_ 99.9 19 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 4 c3jwnF_ 99.9 19 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 5 c2w07B_ 99.9 27 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 6 c2jmrA_ 99.9 18 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 7 d2uy6b1 99.9 20 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 8 d2j2zb1 99.9 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 9 c2jtyA_ 99.9 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 10 c3bfwA_ 99.8 11 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) 11 d1n12a_ 99.8 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 12 d1pdkb_ 99.8 15 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 c3bwuF_ 99.7 20 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) 14 d1ze3h1 99.7 18 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 15 c1klfP_ 99.7 17 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 16 c3qbtH_ 28.9 15 PDB header:protein transport/hydrolase Chain: H: PDB Molecule:inositol polyphosphate 5-phosphatase ocrl-1; PDBTitle: crystal structure of ocrl1 540-678 in complex with rab8a:gppnhp

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