Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	R	P	F	L	N	S	L	M	L	G	S	L	F	F	P	F	I	A	I	A	G	S	T	V	Q	G	G	V	I	H	F	Y	G	Q	I	V	E	P	A	C	D	V	S	T	Q	S	S	P	V	E	M	N	C	P	Q	N	G	S
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?	?	?	?	?	?	?	?	?																														?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.
Sequence		I	P	G	K	T	Y	S	S	K	A	L	M	S	G	N	V	K	N	A	Q	I	A	S	V	K	V	Q	Y	L	D	K	Q	K	K	L	A	V	M	N	I	E	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 2jty chain A Region: 22 - 54 Aligned: 33 Modelled: 33 Confidence: 94.6% Identity: 39% 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 E Region: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 90.4% Identity: 20% PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 3jwn chain K Region: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 90.4% Identity: 20% PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2jmr chain A Region: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 89.8% Identity: 20% PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf Phyre2 PDB 3jwn chain L Region: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 89.0% Identity: 20% 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: 29 - 53 Aligned: 25 Modelled: 25 Confidence: 88.7% Identity: 20% PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh Phyre2 PDB 2j2z chain B domain 1 Region: 31 - 53 Aligned: 23 Modelled: 23 Confidence: 85.4% Identity: 26% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 2uy6 chain B domain 1 Region: 31 - 53 Aligned: 23 Modelled: 23 Confidence: 83.4% Identity: 22% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1cvr chain A domain 1 Region: 38 - 103 Aligned: 65 Modelled: 66 Confidence: 41.2% Identity: 18% Fold: Immunoglobulin-like beta-sandwich Superfamily: E set domains Family: Gingipain R (RgpB), C-terminal domain Phyre2 PDB 2w07 chain B Region: 37 - 53 Aligned: 16 Modelled: 17 Confidence: 31.7% Identity: 13% 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 1hle chain B Region: 27 - 40 Aligned: 14 Modelled: 14 Confidence: 31.5% Identity: 29% PDB header:hydrolase inhibitor(serine proteinase) Chain: B: PDB Molecule:horse leukocyte elastase inhibitor; PDBTitle: crystal structure of cleaved equine leucocyte elastase2 inhibitor determined at 1.95 angstroms resolution Phyre2 PDB 1pdk chain B Region: 37 - 53 Aligned: 17 Modelled: 17 Confidence: 30.9% Identity: 24% Fold: Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily: Bacterial adhesins Family: Pilus subunits Phyre2 PDB 1jjo chain E Region: 27 - 40 Aligned: 14 Modelled: 14 Confidence: 28.7% Identity: 36% PDB header:signaling protein Chain: E: PDB Molecule:neuroserpin; PDBTitle: crystal structure of mouse neuroserpin (cleaved form) Phyre2 PDB 2h4q chain B Region: 27 - 40 Aligned: 14 Modelled: 14 Confidence: 28.0% Identity: 29% PDB header:hydrolase inhibitor Chain: B: PDB Molecule:heterochromatin-associated protein ment; PDBTitle: crystal structure of a m-loop deletion variant of ment in2 the cleaved conformation Phyre2 PDB 9pai chain B Region: 28 - 40 Aligned: 13 Modelled: 13 Confidence: 26.5% Identity: 46% PDB header:hydrolase inhibitor Chain: B: PDB Molecule:protein (plasminogen activator inhibitor-1) residues 365- PDBTitle: cleaved substrate variant of plasminogen activator inhibitor-1 Phyre2 PDB 1i8n chain A Region: 38 - 60 Aligned: 22 Modelled: 23 Confidence: 25.7% Identity: 32% Fold: Hairpin loop containing domain-like Superfamily: Hairpin loop containing domain-like Family: Anti-platelet protein Phyre2 PDB 1i8n chain A Region: 38 - 60 Aligned: 22 Modelled: 23 Confidence: 25.7% Identity: 32% PDB header:toxin Chain: A: PDB Molecule:anti-platelet protein; PDBTitle: crystal structure of leech anti-platelet protein Phyre2 PDB 2riv chain B Region: 28 - 40 Aligned: 13 Modelled: 13 Confidence: 22.1% Identity: 38% PDB header:signaling protein Chain: B: PDB Molecule:thyroxine-binding globulin; PDBTitle: crystal structure of the reactive loop cleaved human thyroxine binding2 globulin Phyre2 PDB 7api chain B Region: 28 - 40 Aligned: 13 Modelled: 13 Confidence: 20.7% Identity: 31% PDB header:proteinase inhibitor Chain: B: PDB Molecule:alpha 1-antitrypsin; PDBTitle: the s variant of human alpha1-antitrypsin, structure and implications2 for function and metabolism Phyre2 PDB 3f02 chain C Region: 27 - 40 Aligned: 14 Modelled: 14 Confidence: 20.7% Identity: 36% PDB header:hydrolase inhibitor Chain: C: PDB Molecule:neuroserpin; PDBTitle: cleaved human neuroserpin Phyre2 1 c2jtyA_ 2 c3jwnE_ 3 c3jwnK_ 4 c2jmrA_ 5 c3jwnL_ 6 c3jwnF_ 7 d2j2zb1 8 d2uy6b1 9 d1cvra1 10 c2w07B_ 11 c1hleB_ 12 d1pdkb_ 13 c1jjoE_ 14 c2h4qB_ 15 c9paiB_ 16 d1i8na_ 17 c1i8nA_ 18 c2rivB_ 19 c7apiB_ 20 c3f02C_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41

Detailed template information

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

1 c2jtyA_ 94.6 39 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 2 c3jwnE_ 90.4 20 PDB header:protein binding/cell adhesion Chain: E: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 3 c3jwnK_ 90.4 20 PDB header:protein binding/cell adhesion Chain: K: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 4 c2jmrA_ 89.8 20 PDB header:cell adhesion Chain: A: PDB Molecule:fimf; PDBTitle: nmr structure of the e. coli type 1 pilus subunit fimf 5 c3jwnL_ 89.0 20 PDB header:protein binding/cell adhesion Chain: L: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 6 c3jwnF_ 88.7 20 PDB header:protein binding/cell adhesion Chain: F: PDB Molecule:protein fimf; PDBTitle: complex of fimc, fimf, fimg and fimh 7 d2j2zb1 85.4 26 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 8 d2uy6b1 83.4 22 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 9 d1cvra1 41.2 18 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Gingipain R (RgpB), C-terminal domain 10 c2w07B_ 31.7 13 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 11 c1hleB_ 31.5 29 PDB header:hydrolase inhibitor(serine proteinase) Chain: B: PDB Molecule:horse leukocyte elastase inhibitor; PDBTitle: crystal structure of cleaved equine leucocyte elastase2 inhibitor determined at 1.95 angstroms resolution 12 d1pdkb_ 30.9 24 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:Bacterial adhesins Family:Pilus subunits 13 c1jjoE_ 28.7 36 PDB header:signaling protein Chain: E: PDB Molecule:neuroserpin; PDBTitle: crystal structure of mouse neuroserpin (cleaved form) 14 c2h4qB_ 28.0 29 PDB header:hydrolase inhibitor Chain: B: PDB Molecule:heterochromatin-associated protein ment; PDBTitle: crystal structure of a m-loop deletion variant of ment in2 the cleaved conformation 15 c9paiB_ 26.5 46 PDB header:hydrolase inhibitor Chain: B: PDB Molecule:protein (plasminogen activator inhibitor-1) residues 365- PDBTitle: cleaved substrate variant of plasminogen activator inhibitor-1 16 d1i8na_ 25.7 32 Fold:Hairpin loop containing domain-like Superfamily:Hairpin loop containing domain-like Family:Anti-platelet protein 17 c1i8nA_ 25.7 32 PDB header:toxin Chain: A: PDB Molecule:anti-platelet protein; PDBTitle: crystal structure of leech anti-platelet protein 18 c2rivB_ 22.1 38 PDB header:signaling protein Chain: B: PDB Molecule:thyroxine-binding globulin; PDBTitle: crystal structure of the reactive loop cleaved human thyroxine binding2 globulin 19 c7apiB_ 20.7 31 PDB header:proteinase inhibitor Chain: B: PDB Molecule:alpha 1-antitrypsin; PDBTitle: the s variant of human alpha1-antitrypsin, structure and implications2 for function and metabolism 20 c3f02C_ 20.7 36 PDB header:hydrolase inhibitor Chain: C: PDB Molecule:neuroserpin; PDBTitle: cleaved human neuroserpin 21 c1mtpB_ not modelled 16.2 46 PDB header:structural genomics Chain: B: PDB Molecule:serine proteinase inhibitor (serpin), chain b; PDBTitle: the x-ray crystal structure of a serpin from a thermophilic2 prokaryote 22 c3cooB_ not modelled 14.1 26 PDB header:cell adhesion Chain: B: PDB Molecule:spondin-1; PDBTitle: the crystal structure of reelin-n domain of f-spondin 23 c3i4oA_ not modelled 13.3 19 PDB header:translation Chain: A: PDB Molecule:translation initiation factor if-1; PDBTitle: crystal structure of translation initiation factor 1 from2 mycobacterium tuberculosis 24 c2zouB_ not modelled 11.9 26 PDB header:cell adhesion Chain: B: PDB Molecule:spondin-1; PDBTitle: crystal struture of human f-spondin reeler domain (fragment 2) 25 d1exta2 not modelled 8.2 36 Fold:TNF receptor-like Superfamily:TNF receptor-like Family:TNF receptor-like 26 c2j98A_ not modelled 7.5 22 PDB header:rna-binding protein Chain: A: PDB Molecule:replicase polyprotein 1ab; PDBTitle: human coronavirus 229e non structural protein 9 cys69ala2 mutant (nsp9) 27 d1qz8a_ not modelled 7.5 40 Fold:Replicase NSP9 Superfamily:Replicase NSP9 Family:Replicase NSP9 28 c1uw7A_ not modelled 7.4 40 PDB header:replicase protein Chain: A: PDB Molecule:nsp9; PDBTitle: nsp9 protein from sars-coronavirus. 29 d1gtka2 not modelled 6.9 13 Fold:dsRBD-like Superfamily:Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain Family:Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain 30 c1ow1A_ not modelled 6.7 37 PDB header:transcription Chain: A: PDB Molecule:smart/hdac1 associated repressor protein; PDBTitle: crystal structure of the spoc domain of the human2 transcriptional corepressor, sharp. 31 d1ow1a_ not modelled 6.7 37 Fold:SPOC domain-like Superfamily:SPOC domain-like Family:SPOC domain 32 c2d3jA_ not modelled 6.7 9 PDB header:signaling protein inhibitor Chain: A: PDB Molecule:wnt inhibitory factor-1; PDBTitle: nmr structure of the wif domain from human wif-1 33 d1n26a1 not modelled 6.6 22 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 34 d2ij0c1 not modelled 6.2 24 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:V set domains (antibody variable domain-like) 35 c2kc2A_ not modelled 5.8 27 PDB header:structural protein Chain: A: PDB Molecule:talin-1; PDBTitle: nmr structure of the f1 domain (residues 86-202) of the2 talin 36 c3m6wA_ not modelled 5.7 20 PDB header:transferase Chain: A: PDB Molecule:rrna methylase; PDBTitle: multi-site-specific 16s rrna methyltransferase rsmf from thermus2 thermophilus in space group p21212 in complex with s-adenosyl-l-3 methionine 37 c2frxD_ not modelled 5.6 20 PDB header:transferase Chain: D: PDB Molecule:hypothetical protein yebu; PDBTitle: crystal structure of yebu, a m5c rna methyltransferase from e.coli 38 d1ikpa1 not modelled 5.5 17 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Exotoxin A, N-terminal domain 39 c2dllA_ not modelled 5.3 10 PDB header:cytokine Chain: A: PDB Molecule:interferon regulatory factor 4; PDBTitle: solution structure of the irf domain of human interferon2 regulator factors 4 40 d1pdaa2 not modelled 5.2 17 Fold:dsRBD-like Superfamily:Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain Family:Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain 41 d3c2ah1 not modelled 5.1 20 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:V set domains (antibody variable domain-like)

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