Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	I	R	I	M	L	F	I	L	M	M	M	V	M	P	V	S	Y	A	A	C	Y	S	E	L	S	V	Q	H	N	L	V	V	Q	G	D	F	A	L	T	Q	T	Q	M	A	T	Y	E	H	N	F	N	D	S	S	C	V	S	T
Secondary structure
SS confidence
Disorder		?	?	?												?		?	?	?	?									?	?	?			?	?	?	?	?	?	?	?	?	?	?			?			?			?	?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	T	I	T	P	M	S	P	S	D	I	I	V	G	L	Y	N	D	T	I	K	L	N	L	H	F	E	W	T	N	K	N	N	I	T	L	S	N	N	Q	T	S	F	T	S	G	Y	S	V	T	V	T	P	A	A	S	N	A	K	V
Secondary structure
SS confidence
Disorder		?																												?	?	?	?	?	?		?	?		?	?	?			?	?	?								?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		N	V	S	A	G	G	G	G	S	V	M	I	N	G	V	A	T	L	S	S	A	S	S	S	T	R	G	S	A	A	V	Q	F	L	L	C	L	L	G	G	K	S	W	D	A	C	V	N	S	Y	R	N	A	L	A	Q	N	A	G	V
Secondary structure
SS confidence
Disorder		?			?		?	?						?	?					?	?	?	?	?	?	?	?	?																															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Y	S	F	N	L	T	L	S	Y	N	P	I	T	T	T	C	K	P	D	D	L	L	I	T	L	D	S	I	P	V	S	Q	L	P	A	T	G	N	K	A	T	I	N	S	K	Q	G	D	I	I	L	R	C	K	N	L	L	G	Q	Q
Secondary structure
SS confidence
Disorder																					?	?				?	?	?	?	?			?	?	?	?	?	?	?	?	?	?	?	?	?	?	?									?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		N	Q	T	S	R	K	M	Q	V	Y	L	S	S	S	D	L	L	T	N	S	N	T	I	L	K	G	A	E	D	N	G	V	G	F	I	L	E	S	N	G	S	P	V	T	L	L	N	I	T	N	S	S	K	G	Y	T	N	L	K	E
Secondary structure
SS confidence
Disorder		?	?												?		?		?	?	?	?				?	?	?												?		?	?				?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.
Sequence		V	A	A	K	S	K	L	T	D	T	T	V	S	I	P	I	T	A	S	Y	Y	V	Y	D	T	N	K	V	K	S	G	A	L	E	A	T	A	L	I	N	V	K	Y	D
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: 27 - 344 Aligned: 263 Modelled: 292 Confidence: 99.9% Identity: 16% 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: 193 - 344 Aligned: 120 Modelled: 139 Confidence: 99.8% Identity: 23% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jty chain A Region: 184 - 344 Aligned: 147 Modelled: 161 Confidence: 99.8% Identity: 17% 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: 192 - 344 Aligned: 131 Modelled: 153 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 3jwn chain L Region: 183 - 344 Aligned: 148 Modelled: 162 Confidence: 99.8% 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: 183 - 344 Aligned: 148 Modelled: 162 Confidence: 99.8% Identity: 16% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain F Region: 183 - 344 Aligned: 148 Modelled: 162 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: 183 - 344 Aligned: 148 Modelled: 162 Confidence: 99.8% Identity: 16% PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2jmr chain A Region: 184 - 344 Aligned: 147 Modelled: 161 Confidence: 99.7% 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 2j2z chain B domain 1 Region: 183 - 344 Aligned: 146 Modelled: 162 Confidence: 99.7% Identity: 13% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 208 - 344 Aligned: 121 Modelled: 137 Confidence: 99.7% Identity: 17% 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 1pdk chain B Region: 189 - 344 Aligned: 143 Modelled: 156 Confidence: 99.7% Identity: 16% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2uy6 chain B domain 1 Region: 185 - 344 Aligned: 143 Modelled: 160 Confidence: 99.6% Identity: 19% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2w07 chain B Region: 190 - 344 Aligned: 117 Modelled: 132 Confidence: 99.6% 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: 194 - 344 Aligned: 132 Modelled: 151 Confidence: 99.4% Identity: 16% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2wmp chain B Region: 196 - 343 Aligned: 113 Modelled: 119 Confidence: 42.1% Identity: 16% 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 1ljm chain A Region: 211 - 254 Aligned: 42 Modelled: 44 Confidence: 9.0% Identity: 14% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: p53-like transcription factors Family: RUNT domain Phyre2 PDB 2xqx chain B Region: 311 - 332 Aligned: 22 Modelled: 22 Confidence: 8.2% Identity: 27% PDB header:sugar binding protein Chain: B: PDB Molecule:endo-beta-n-acetylglucosaminidase d; PDBTitle: structure of the family 32 carbohydrate-binding module from2 streptococcus pneumoniae endod Phyre2 PDB 1eaq chain A Region: 211 - 254 Aligned: 42 Modelled: 44 Confidence: 8.2% Identity: 14% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: p53-like transcription factors Family: RUNT domain Phyre2 PDB 2qqi chain A domain 1 Region: 315 - 323 Aligned: 9 Modelled: 9 Confidence: 7.2% Identity: 0% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain) Phyre2 1 c1klfP_ 2 d1ze3h1 3 c2jtyA_ 4 c3bfwA_ 5 c3jwnL_ 6 c3jwnK_ 7 c3jwnF_ 8 c3jwnE_ 9 c2jmrA_ 10 d2j2zb1 11 c3bwuF_ 12 d1pdkb_ 13 d2uy6b1 14 c2w07B_ 15 d1n12a_ 16 c2wmpB_ 17 d1ljma_ 18 c2xqxB_ 19 d1eaqa_ 20 d2qqia1 21 22 23 24 25

Detailed template information

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

1 c1klfP_ 99.9 16 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 2 d1ze3h1 99.8 23 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 3 c2jtyA_ 99.8 17 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 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) 5 c3jwnL_ 99.8 17 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 c3jwnK_ 99.8 16 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 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 16 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 9 c2jmrA_ 99.7 17 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 10 d2j2zb1 99.7 13 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 11 c3bwuF_ 99.7 17 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 d1pdkb_ 99.7 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 d2uy6b1 99.6 19 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 14 c2w07B_ 99.6 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 15 d1n12a_ 99.4 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 16 c2wmpB_ 42.1 16 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 d1ljma_ 9.0 14 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:p53-like transcription factors Family:RUNT domain 18 c2xqxB_ 8.2 27 PDB header:sugar binding protein Chain: B: PDB Molecule:endo-beta-n-acetylglucosaminidase d; PDBTitle: structure of the family 32 carbohydrate-binding module from2 streptococcus pneumoniae endod 19 d1eaqa_ 8.2 14 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:p53-like transcription factors Family:RUNT domain 20 d2qqia1 7.2 0 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain) 21 d1sddb3 not modelled 7.2 23 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain) 22 d1d7pm_ not modelled 7.1 15 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Discoidin domain (FA58C, coagulation factor 5/8 C-terminal domain) 23 c2qqjA_ not modelled 6.7 44 PDB header:signaling protein Chain: A: PDB Molecule:neuropilin-2; PDBTitle: crystal structure of the b1b2 domains from human neuropilin-2 24 d1qbea_ not modelled 5.6 27 Fold:RNA bacteriophage capsid protein Superfamily:RNA bacteriophage capsid protein Family:RNA bacteriophage capsid protein 25 c2orxA_ not modelled 5.3 11 PDB header:signaling protein, membrane protein Chain: A: PDB Molecule:neuropilin-1; PDBTitle: structural basis for ligand binding and heparin mediated activation of2 neuropilin

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