Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	D	E	T	L	G	F	F	K	K	T	S	S	S	H	A	R	L	N	V	P	A	L	V	Q	V	A	A	L	A	I	I	M	I	R	G	L	D	V	L	M	I	F	N	T	L	G	V	R	G	I	G	E	F	I	H	R	S	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?				?	?	?	?	?	?	?	?	?	?																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Q	T	W	S	L	T	L	V	F	L	S	S	L	V	L	V	F	I	E	I	W	C	A	F	S	L	V	K	G	R	R	W	A	R	W	L	Y	L	L	T	Q	I	T	A	A	S	Y	L	W	A	A	S	L	G	Y	G	Y	P	E	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.
Sequence		F	S	I	P	G	E	S	K	R	E	I	F	H	S	L	M	L	Q	K	L	P	D	M	L	I	L	M	L	L	F	V	P	S	T	S	R	R	F	F	Q	L	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 2dw3 chain A Region: 78 - 104 Aligned: 27 Modelled: 27 Confidence: 54.1% Identity: 30% PDB header:photosynthesis Chain: A: PDB Molecule:intrinsic membrane protein pufx; PDBTitle: solution structure of the rhodobacter sphaeroides pufx2 membrane protein Phyre2 PDB 1ysg chain A domain 1 Region: 89 - 113 Aligned: 17 Modelled: 25 Confidence: 19.0% Identity: 29% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1g5m chain A Region: 89 - 113 Aligned: 17 Modelled: 25 Confidence: 16.3% Identity: 24% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 2pon chain B domain 1 Region: 89 - 113 Aligned: 17 Modelled: 25 Confidence: 14.4% Identity: 29% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1kl7 chain A Region: 90 - 139 Aligned: 47 Modelled: 50 Confidence: 12.7% Identity: 26% Fold: Tryptophan synthase beta subunit-like PLP-dependent enzymes Superfamily: Tryptophan synthase beta subunit-like PLP-dependent enzymes Family: Tryptophan synthase beta subunit-like PLP-dependent enzymes Phyre2 PDB 1s4k chain A Region: 38 - 66 Aligned: 29 Modelled: 29 Confidence: 12.5% Identity: 17% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: YdiL-like Phyre2 PDB 1ifl chain A Region: 20 - 32 Aligned: 13 Modelled: 13 Confidence: 11.2% Identity: 46% PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: molecular models and structural comparisons of native and2 mutant class i filamentous bacteriophages ff (fd, f1, m13),3 if1 and ike Phyre2 PDB 2k9y chain B Region: 30 - 58 Aligned: 26 Modelled: 29 Confidence: 10.3% Identity: 38% PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 2k9y chain A Region: 30 - 58 Aligned: 26 Modelled: 29 Confidence: 10.3% Identity: 38% PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 2wvr chain C Region: 110 - 139 Aligned: 30 Modelled: 30 Confidence: 9.7% Identity: 20% PDB header:replication Chain: C: PDB Molecule:dna replication factor cdt1; PDBTitle: human cdt1:geminin complex Phyre2 PDB 2bol chain A Region: 49 - 64 Aligned: 16 Modelled: 16 Confidence: 9.0% Identity: 19% PDB header:heat shock protein Chain: A: PDB Molecule:small heat shock protein; PDBTitle: crystal structure and assembly of tsp36, a metazoan small2 heat shock protein Phyre2 PDB 1i7q chain B Region: 116 - 136 Aligned: 19 Modelled: 21 Confidence: 9.0% Identity: 21% Fold: Flavodoxin-like Superfamily: Class I glutamine amidotransferase-like Family: Class I glutamine amidotransferases (GAT) Phyre2 PDB 1xrx chain A domain 1 Region: 125 - 136 Aligned: 12 Modelled: 10 Confidence: 8.6% Identity: 33% Fold: Ribbon-helix-helix Superfamily: Ribbon-helix-helix Family: SeqA N-terminal domain-like Phyre2 PDB 1xrx chain D Region: 125 - 136 Aligned: 12 Modelled: 10 Confidence: 8.6% Identity: 33% PDB header:replication inhibitor Chain: D: PDB Molecule:seqa protein; PDBTitle: crystal structure of a dna-binding protein Phyre2 PDB 2p7t chain C domain 1 Region: 16 - 30 Aligned: 14 Modelled: 15 Confidence: 8.4% Identity: 36% Fold: Voltage-gated potassium channels Superfamily: Voltage-gated potassium channels Family: Voltage-gated potassium channels Phyre2 PDB 1wlo chain A Region: 110 - 136 Aligned: 27 Modelled: 27 Confidence: 8.2% Identity: 4% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sufe protein; PDBTitle: solution structure of the hypothetical protein from thermus2 thermophilus hb8 Phyre2 PDB 2j6b chain A domain 1 Region: 123 - 141 Aligned: 19 Modelled: 19 Confidence: 7.1% Identity: 21% Fold: STIV B116-like Superfamily: STIV B116-like Family: STIV B116-like Phyre2 PDB 2x4i chain A Region: 122 - 141 Aligned: 20 Modelled: 20 Confidence: 6.6% Identity: 25% PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein 114; PDBTitle: orf 114a from sulfolobus islandicus rudivirus 1 Phyre2 PDB 3fmt chain F Region: 125 - 136 Aligned: 12 Modelled: 12 Confidence: 6.1% Identity: 33% PDB header:replication inhibitor/dna Chain: F: PDB Molecule:protein seqa; PDBTitle: crystal structure of seqa bound to dna Phyre2 PDB 1i1q chain B Region: 116 - 136 Aligned: 19 Modelled: 21 Confidence: 6.0% Identity: 21% Fold: Flavodoxin-like Superfamily: Class I glutamine amidotransferase-like Family: Class I glutamine amidotransferases (GAT) Phyre2 1 c2dw3A_ 2 d1ysga1 3 d1g5ma_ 4 d2ponb1 5 d1kl7a_ 6 d1s4ka_ 7 c1iflA_ 8 c2k9yB_ 9 c2k9yA_ 10 c2wvrC_ 11 c2bolA_ 12 d1i7qb_ 13 d1xrxa1 14 c1xrxD_ 15 d2p7tc1 16 c1wloA_ 17 d2j6ba1 18 c2x4iA_ 19 c3fmtF_ 20 d1i1qb_ 21 22

Detailed template information

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

1 c2dw3A_ 54.1 30 PDB header:photosynthesis Chain: A: PDB Molecule:intrinsic membrane protein pufx; PDBTitle: solution structure of the rhodobacter sphaeroides pufx2 membrane protein 2 d1ysga1 19.0 29 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 3 d1g5ma_ 16.3 24 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 4 d2ponb1 14.4 29 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 5 d1kl7a_ 12.7 26 Fold:Tryptophan synthase beta subunit-like PLP-dependent enzymes Superfamily:Tryptophan synthase beta subunit-like PLP-dependent enzymes Family:Tryptophan synthase beta subunit-like PLP-dependent enzymes 6 d1s4ka_ 12.5 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:YdiL-like 7 c1iflA_ 11.2 46 PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: molecular models and structural comparisons of native and2 mutant class i filamentous bacteriophages ff (fd, f1, m13),3 if1 and ike 8 c2k9yB_ 10.3 38 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 9 c2k9yA_ 10.3 38 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 10 c2wvrC_ 9.7 20 PDB header:replication Chain: C: PDB Molecule:dna replication factor cdt1; PDBTitle: human cdt1:geminin complex 11 c2bolA_ 9.0 19 PDB header:heat shock protein Chain: A: PDB Molecule:small heat shock protein; PDBTitle: crystal structure and assembly of tsp36, a metazoan small2 heat shock protein 12 d1i7qb_ 9.0 21 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT) 13 d1xrxa1 8.6 33 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:SeqA N-terminal domain-like 14 c1xrxD_ 8.6 33 PDB header:replication inhibitor Chain: D: PDB Molecule:seqa protein; PDBTitle: crystal structure of a dna-binding protein 15 d2p7tc1 8.4 36 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 16 c1wloA_ 8.2 4 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:sufe protein; PDBTitle: solution structure of the hypothetical protein from thermus2 thermophilus hb8 17 d2j6ba1 7.1 21 Fold:STIV B116-like Superfamily:STIV B116-like Family:STIV B116-like 18 c2x4iA_ 6.6 25 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein 114; PDBTitle: orf 114a from sulfolobus islandicus rudivirus 1 19 c3fmtF_ 6.1 33 PDB header:replication inhibitor/dna Chain: F: PDB Molecule:protein seqa; PDBTitle: crystal structure of seqa bound to dna 20 d1i1qb_ 6.0 21 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT) 21 c3e15D_ not modelled 5.9 17 PDB header:hydrolase Chain: D: PDB Molecule:glucose-6-phosphate 1-dehydrogenase; PDBTitle: 6-phosphogluconolactonase from plasmodium vivax 22 d1t57a_ not modelled 5.2 27 Fold:Pyruvate kinase C-terminal domain-like Superfamily:PK C-terminal domain-like Family:MTH1675-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