Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	I	I	F	G	E	K	C	V	S	L	L	R	L	F	F	A	A	V	L	M	L	W	C	A	Q	T	A	A	Y	S	G	Q	C	H	T	T	Q	G	N	P	Y	I	G	V	N	F	G	V	K	T	L	E	E	E	A	N	T	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																																										?	?	?	?	?				?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	V	V	K	D	K	F	Y	Q	W	N	E	S	N	D	Y	Y	V	S	C	D	C	D	K	D	N	V	R	S	G	R	W	A	F	A	A	D	S	P	L	V	Y	L	G	D	N	W	Y	K	I	N	D	Y	L	A	A	K	V	L	L
Secondary structure
SS confidence
Disorder											?	?	?	?	?																						?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		Q	V	K	G	S	S	P	T	A	V	P	F	E	N	V	G	T	G	G	D	T	R	W	H	I	C	D	P	G	G	Q	R	L	G	G	Q	G	A	S	G	N	S	G	S	F	S	L	K	I	L	Q	P	F	V	G	S	V	V	I	P
Secondary structure
SS confidence
Disorder																?	?	?	?	?	?	?	?					?	?		?	?	?	?	?		?	?	?																?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		P	M	A	L	A	R	L	Y	E	C	Y	N	I	P	A	G	D	S	C	T	T	T	G	T	P	V	L	V	Y	Y	L	S	G	T	I	N	S	L	G	S	C	S	V	N	A	G	E	T	I	E	V	D	L	G	D	V	F	A	A	N
Secondary structure
SS confidence
Disorder		?						?		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?														?	?		?			?	?		?										?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		F	R	V	V	G	H	K	P	L	G	A	R	T	A	E	L	A	I	P	V	R	C	N	T	G	N	A	G	L	V	N	V	N	L	S	L	T	A	T	T	D	P	S	Y	P	Q	A	I	K	T	S	R	P	G	V	G	V	V	V	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?															?		?										?	?	?	?	?	?	?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.
Sequence		D	S	Q	N	N	I	I	S	P	A	G	G	T	L	P	L	S	I	P	D	D	A	D	S	I	A	R	M	N	V	Y	P	V	S	T	T	G	V	P	P	E	T	G	R	F	E	A	T	A	T	V	R	I	N	F	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: 34 - 356 Aligned: 275 Modelled: 275 Confidence: 99.9% Identity: 14% PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose Phyre2 PDB 2w07 chain B Region: 215 - 356 Aligned: 120 Modelled: 142 Confidence: 99.9% 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 3bfw chain A Region: 218 - 355 Aligned: 131 Modelled: 138 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 3jwn chain K Region: 209 - 356 Aligned: 143 Modelled: 148 Confidence: 99.8% 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 L Region: 209 - 356 Aligned: 143 Modelled: 148 Confidence: 99.8% 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 E Region: 209 - 356 Aligned: 143 Modelled: 148 Confidence: 99.8% Identity: 19% 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: 209 - 356 Aligned: 143 Modelled: 148 Confidence: 99.8% Identity: 21% 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: 208 - 356 Aligned: 142 Modelled: 148 Confidence: 99.8% Identity: 14% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3jwn chain F Region: 209 - 356 Aligned: 143 Modelled: 148 Confidence: 99.8% Identity: 18% PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 1pdk chain B Region: 216 - 356 Aligned: 138 Modelled: 141 Confidence: 99.8% Identity: 17% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2jty chain A Region: 209 - 356 Aligned: 142 Modelled: 148 Confidence: 99.7% Identity: 21% 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 2uy6 chain B domain 1 Region: 209 - 356 Aligned: 142 Modelled: 148 Confidence: 99.7% Identity: 16% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1n12 chain A Region: 219 - 355 Aligned: 129 Modelled: 137 Confidence: 99.7% Identity: 21% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1ze3 chain H domain 1 Region: 220 - 356 Aligned: 119 Modelled: 123 Confidence: 99.7% Identity: 20% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 3bwu chain F Region: 235 - 356 Aligned: 118 Modelled: 122 Confidence: 99.6% Identity: 18% 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 2bsc chain A domain 1 Region: 73 - 212 Aligned: 134 Modelled: 140 Confidence: 90.9% Identity: 13% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: F17c-type adhesin Phyre2 PDB 1oio chain A Region: 71 - 216 Aligned: 139 Modelled: 144 Confidence: 88.2% Identity: 10% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: F17c-type adhesin Phyre2 PDB 2wmp chain B Region: 220 - 355 Aligned: 117 Modelled: 136 Confidence: 72.0% 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 1p5v chain B Region: 257 - 356 Aligned: 91 Modelled: 100 Confidence: 48.9% Identity: 12% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2wd6 chain B Region: 223 - 342 Aligned: 116 Modelled: 120 Confidence: 31.6% Identity: 15% PDB header:cell adhesion Chain: B: PDB Molecule:agglutinin receptor; PDBTitle: crystal structure of the variable domain of the2 streptococcus gordonii surface protein sspb Phyre2 1 c1klfP_ 2 c2w07B_ 3 c3bfwA_ 4 c3jwnK_ 5 c3jwnL_ 6 c3jwnE_ 7 c2jmrA_ 8 d2j2zb1 9 c3jwnF_ 10 d1pdkb_ 11 c2jtyA_ 12 d2uy6b1 13 d1n12a_ 14 d1ze3h1 15 c3bwuF_ 16 d2bsca1 17 d1oioa_ 18 c2wmpB_ 19 d1p5vb_ 20 c2wd6B_ 21 22 23 24

Detailed template information

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

1 c1klfP_ 99.9 14 PDB header:chaperone/adhesin complex Chain: P: PDB Molecule:fimh protein; PDBTitle: fimh adhesin-fimc chaperone complex with d-mannose 2 c2w07B_ 99.9 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 3 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) 4 c3jwnK_ 99.8 19 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 5 c3jwnL_ 99.8 19 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 c3jwnE_ 99.8 19 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 7 c2jmrA_ 99.8 21 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 8 d2j2zb1 99.8 14 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 9 c3jwnF_ 99.8 18 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 10 d1pdkb_ 99.8 17 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 11 c2jtyA_ 99.7 21 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 d2uy6b1 99.7 16 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 d1n12a_ 99.7 21 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 14 d1ze3h1 99.7 20 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 15 c3bwuF_ 99.6 18 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 d2bsca1 90.9 13 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:F17c-type adhesin 17 d1oioa_ 88.2 10 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:F17c-type adhesin 18 c2wmpB_ 72.0 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 19 d1p5vb_ 48.9 12 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 20 c2wd6B_ 31.6 15 PDB header:cell adhesion Chain: B: PDB Molecule:agglutinin receptor; PDBTitle: crystal structure of the variable domain of the2 streptococcus gordonii surface protein sspb 21 d1jmma_ not modelled 10.9 10 Fold:Supersandwich Superfamily:V-region of surface antigen I/II (SA I/II, PAC) Family:V-region of surface antigen I/II (SA I/II, PAC) 22 c3fblA_ not modelled 9.6 55 PDB header:structural protein Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: crystal structure of orf132 of the archaeal virus acidianus2 filamentous virus 1 (afv1) 23 c3osvC_ not modelled 6.2 13 PDB header:structural protein Chain: C: PDB Molecule:flagellar basal-body rod modification protein flgd; PDBTitle: the crytsal structure of flgd from p. aeruginosa 24 c2voyG_ not modelled 5.4 32 PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus

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