Secondary structure and disorder prediction

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Sequence		M	N	N	S	I	P	E	R	F	I	F	Q	C	A	L	F	K	N	L	E	R	E	V	F	M	T	H	G	Y	V	D	S	H	I	I	D	Q	A	L	R	L	R	L	K	D	E	T	S	V	I	L	S	D	L	Y	L	Q	I	L	Q
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.
Sequence		Y	I	E	M	H	K	T	T	L	T	D	I	I	I	N	D	R	E	S	V	L	S
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 2oxl chain A Region: 13 - 62 Aligned: 50 Modelled: 50 Confidence: 87.6% Identity: 14% PDB header:gene regulation Chain: A: PDB Molecule:hypothetical protein ymgb; PDBTitle: structure and function of the e. coli protein ymgb: a protein critical2 for biofilm formation and acid resistance Phyre2 PDB 1pd3 chain A Region: 35 - 62 Aligned: 28 Modelled: 28 Confidence: 37.1% Identity: 25% Fold: ROP-like Superfamily: Nonstructural protein ns2, Nep, M1-binding domain Family: Nonstructural protein ns2, Nep, M1-binding domain Phyre2 PDB 1unv chain B Region: 45 - 55 Aligned: 11 Modelled: 11 Confidence: 28.6% Identity: 64% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1unu chain A Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 20.1% Identity: 43% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1unu chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 20.1% Identity: 43% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1unv chain A Region: 47 - 55 Aligned: 9 Modelled: 9 Confidence: 17.3% Identity: 67% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1uny chain A Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 11.8% Identity: 43% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1u9h chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 10.4% Identity: 43% PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of e(22)l(23) Phyre2 PDB 1u9g chain A Region: 49 - 55 Aligned: 7 Modelled: 7 Confidence: 9.8% Identity: 71% PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of k(8)l(9) Phyre2 PDB 1u9g chain B Region: 49 - 55 Aligned: 7 Modelled: 7 Confidence: 9.8% Identity: 71% PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of k(8)l(9) Phyre2 PDB 1unz chain A Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 9.3% Identity: 43% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1unz chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 9.3% Identity: 43% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1ufi chain D Region: 55 - 77 Aligned: 23 Modelled: 23 Confidence: 8.3% Identity: 35% PDB header:dna binding protein Chain: D: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of the dimerization domain of human cenp-b Phyre2 PDB 1uo5 chain A Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 43% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1uo5 chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 8.1% Identity: 43% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1ufi chain A Region: 55 - 77 Aligned: 23 Modelled: 23 Confidence: 8.0% Identity: 35% Fold: ROP-like Superfamily: Dimerisation domain of CENP-B Family: Dimerisation domain of CENP-B Phyre2 PDB 1unt chain A Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 7.9% Identity: 43% PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1unt chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 7.6% Identity: 43% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1uo3 chain B Region: 42 - 55 Aligned: 14 Modelled: 14 Confidence: 7.6% Identity: 43% PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles Phyre2 PDB 1gj8 chain A Region: 6 - 13 Aligned: 8 Modelled: 8 Confidence: 7.2% Identity: 63% PDB header:blood clotting, hydrolase Chain: A: PDB Molecule:urokinase-type plasminogen activator; PDBTitle: engineering inhibitors highly selective for the s1 sites of ser1902 trypsin-like serine protease drug targets Phyre2 1 c2oxlA_ 2 d1pd3a_ 3 c1unvB_ 4 c1unuA_ 5 c1unuB_ 6 c1unvA_ 7 c1unyA_ 8 c1u9hB_ 9 c1u9gA_ 10 c1u9gB_ 11 c1unzA_ 12 c1unzB_ 13 c1ufiD_ 14 c1uo5A_ 15 c1uo5B_ 16 d1ufia_ 17 c1untA_ 18 c1untB_ 19 c1uo3B_ 20 c1gj8A_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47

Detailed template information

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

1 c2oxlA_ 87.6 14 PDB header:gene regulation Chain: A: PDB Molecule:hypothetical protein ymgb; PDBTitle: structure and function of the e. coli protein ymgb: a protein critical2 for biofilm formation and acid resistance 2 d1pd3a_ 37.1 25 Fold:ROP-like Superfamily:Nonstructural protein ns2, Nep, M1-binding domain Family:Nonstructural protein ns2, Nep, M1-binding domain 3 c1unvB_ 28.6 64 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 4 c1unuA_ 20.1 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 5 c1unuB_ 20.1 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 6 c1unvA_ 17.3 67 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 7 c1unyA_ 11.8 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 8 c1u9hB_ 10.4 43 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of e(22)l(23) 9 c1u9gA_ 9.8 71 PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of k(8)l(9) 10 c1u9gB_ 9.8 71 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of k(8)l(9) 11 c1unzA_ 9.3 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 12 c1unzB_ 9.3 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 13 c1ufiD_ 8.3 35 PDB header:dna binding protein Chain: D: PDB Molecule:major centromere autoantigen b; PDBTitle: crystal structure of the dimerization domain of human cenp-b 14 c1uo5A_ 8.1 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 15 c1uo5B_ 8.1 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 16 d1ufia_ 8.0 35 Fold:ROP-like Superfamily:Dimerisation domain of CENP-B Family:Dimerisation domain of CENP-B 17 c1untA_ 7.9 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 18 c1untB_ 7.6 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 19 c1uo3B_ 7.6 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 20 c1gj8A_ 7.2 63 PDB header:blood clotting, hydrolase Chain: A: PDB Molecule:urokinase-type plasminogen activator; PDBTitle: engineering inhibitors highly selective for the s1 sites of ser1902 trypsin-like serine protease drug targets 21 c1gjaA_ not modelled 7.2 63 PDB header:blood clotting, hydrolase Chain: A: PDB Molecule:urokinase-type plasminogen activator; PDBTitle: engineering inhibitors highly selective for the s1 sites of ser1902 trypsin-like serine protease drug targets 22 c1gjdA_ not modelled 7.2 63 PDB header:blood clotting, hydrolase Chain: A: PDB Molecule:urokinase-type plasminogen activator; PDBTitle: engineering inhibitors highly selective for the s1 sites of ser1902 trypsin-like serine protease drug targets 23 c2wbrA_ not modelled 6.3 40 PDB header:dna-binding protein Chain: A: PDB Molecule:gw182; PDBTitle: the rrm domain in gw182 proteins contributes to mirna-2 mediated gene silencing 24 c1unwB_ not modelled 6.3 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 25 c1unyB_ not modelled 6.2 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 26 c2ccfA_ not modelled 6.2 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: antiparallel configuration of pli e20s 27 c1u9hA_ not modelled 6.2 43 PDB header:transcription Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: heterocyclic peptide backbone modification in gcn4-pli based coiled2 coils: replacement of e(22)l(23) 28 c1uo0A_ not modelled 6.1 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 29 c1uo0B_ not modelled 6.1 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 30 c1uo1B_ not modelled 6.1 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 31 c1uo1A_ not modelled 6.1 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 32 c1gclA_ not modelled 6.0 43 PDB header:leucine zipper Chain: A: PDB Molecule:gcn4; PDBTitle: gcn4 leucine zipper core mutant p-li 33 c1gclD_ not modelled 6.0 43 PDB header:leucine zipper Chain: D: PDB Molecule:gcn4; PDBTitle: gcn4 leucine zipper core mutant p-li 34 c1gclB_ not modelled 6.0 43 PDB header:leucine zipper Chain: B: PDB Molecule:gcn4; PDBTitle: gcn4 leucine zipper core mutant p-li 35 c1gclC_ not modelled 6.0 43 PDB header:leucine zipper Chain: C: PDB Molecule:gcn4; PDBTitle: gcn4 leucine zipper core mutant p-li 36 c1w5jA_ not modelled 6.0 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: an anti-parallel four helix bundle 37 c1w5jC_ not modelled 6.0 43 PDB header:four helix bundle Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: an anti-parallel four helix bundle 38 c1w5jB_ not modelled 6.0 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: an anti-parallel four helix bundle 39 c1w5jD_ not modelled 6.0 43 PDB header:four helix bundle Chain: D: PDB Molecule:general control protein gcn4; PDBTitle: an anti-parallel four helix bundle 40 c1unxA_ not modelled 6.0 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 41 c2cceA_ not modelled 5.9 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: parallel configuration of pli e20s 42 c2cceB_ not modelled 5.9 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: parallel configuration of pli e20s 43 c1w5iA_ not modelled 5.6 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: aba does not affect topology of pli. 44 c1uo2A_ not modelled 5.6 43 PDB header:four helix bundle Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 45 c1uo2B_ not modelled 5.4 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles 46 c1w5iB_ not modelled 5.4 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: aba does not affect topology of pli. 47 c1unxB_ not modelled 5.4 43 PDB header:four helix bundle Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: structure based engineering of internal molecular surfaces2 of four helix bundles

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