Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	P	G	C	T	L	F	F	L	L	C	S	A	L	T	V	T	T	E	A	H	A	Q	T	P	D	T	A	T	T	A	P	Y	L	L	A	G	A	P	T	F	D	L	S	I	S	Q	F	R	E	D	F	N	S	Q	N	P	S	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?										?	?	?				?	?	?	?	?	?			?				?								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	L	N	E	F	R	A	I	D	S	S	P	D	K	A	N	L	T	R	A	A	S	K	I	N	E	N	L	Y	A	S	T	A	L	E	R	G	T	L	K	I	K	S	I	Q	M	T	W	L	P	I	Q	G	P	E	Q	K	A	A	K
Secondary structure
SS confidence
Disorder										?											?																?	?	?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	K	A	Q	E	Y	M	A	A	V	I	R	T	L	T	P	L	M	T	K	T	Q	S	Q	K	K	L	Q	S	L	L	T	A	G	K	N	K	R	Y	Y	T	E	T	E	G	A	L	R	Y	V	V	A	D	N	G	E	K	G	L	T
Secondary structure
SS confidence
Disorder																	?	?	?	?	?	?	?													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.
Sequence		F	A	V	E	P	I	K	L	A	L	S	E	S	L	E	G	L	N	K
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 3ikm chain D Region: 124 - 160 Aligned: 37 Modelled: 37 Confidence: 69.7% Identity: 22% PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme Phyre2 PDB 1d9c chain A Region: 42 - 61 Aligned: 20 Modelled: 20 Confidence: 14.3% Identity: 30% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Interferons/interleukin-10 (IL-10) Phyre2 PDB 1eq1 chain A Region: 46 - 102 Aligned: 49 Modelled: 57 Confidence: 13.1% Identity: 27% Fold: Apolipophorin-III Superfamily: Apolipophorin-III Family: Apolipophorin-III Phyre2 PDB 1tul chain A Region: 166 - 184 Aligned: 19 Modelled: 19 Confidence: 12.0% Identity: 21% Fold: beta-clip Superfamily: Tlp20, baculovirus telokin-like protein Family: Tlp20, baculovirus telokin-like protein Phyre2 PDB 1u5t chain A domain 1 Region: 47 - 55 Aligned: 9 Modelled: 9 Confidence: 11.7% Identity: 33% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Vacuolar sorting protein domain Phyre2 PDB 1g2c chain N Region: 42 - 56 Aligned: 15 Modelled: 15 Confidence: 10.9% Identity: 53% PDB header:viral protein Chain: N: PDB Molecule:fusion protein (f); PDBTitle: human respiratory syncytial virus fusion protein core Phyre2 PDB 2ai4 chain A Region: 165 - 182 Aligned: 18 Modelled: 18 Confidence: 10.6% Identity: 39% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein so1698; PDBTitle: structure of protein of unknown function so1698 from shewanella2 oneidensis Phyre2 PDB 1eys chain H domain 1 Region: 159 - 186 Aligned: 27 Modelled: 28 Confidence: 10.1% Identity: 19% Fold: PRC-barrel domain Superfamily: PRC-barrel domain Family: Photosynthetic reaction centre, H-chain, cytoplasmic domain Phyre2 PDB 2xvo chain B Region: 96 - 112 Aligned: 16 Modelled: 17 Confidence: 9.3% Identity: 38% PDB header:structural genomics Chain: B: PDB Molecule:sso1725; PDBTitle: sso1725, a protein involved in the crispr/cas pathway Phyre2 PDB 2i5n chain H Region: 159 - 186 Aligned: 27 Modelled: 28 Confidence: 6.9% Identity: 19% PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique Phyre2 PDB 2rig chain A Region: 41 - 61 Aligned: 21 Modelled: 21 Confidence: 6.8% Identity: 5% PDB header:cytokine Chain: A: PDB Molecule:interferon-gamma; PDBTitle: crystal structure of recombinant rabbit interferon-gamma at2 2.7-angstroms resolution Phyre2 PDB 2rig chain A Region: 41 - 61 Aligned: 21 Modelled: 21 Confidence: 6.8% Identity: 5% Fold: 4-helical cytokines Superfamily: 4-helical cytokines Family: Interferons/interleukin-10 (IL-10) Phyre2 PDB 3aag chain A Region: 52 - 79 Aligned: 24 Modelled: 28 Confidence: 5.8% Identity: 29% PDB header:transferase Chain: A: PDB Molecule:general glycosylation pathway protein; PDBTitle: crystal structure of c. jejuni pglb c-terminal domain Phyre2 PDB 1u2z chain C Region: 75 - 104 Aligned: 30 Modelled: 30 Confidence: 5.8% Identity: 23% PDB header:transferase Chain: C: PDB Molecule:histone-lysine n-methyltransferase, h3 lysine-79 PDBTitle: crystal structure of histone k79 methyltransferase dot1p2 from yeast Phyre2 PDB 3kf8 chain C Region: 24 - 55 Aligned: 32 Modelled: 32 Confidence: 5.7% Identity: 38% PDB header:structural protein Chain: C: PDB Molecule:protein stn1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex Phyre2 PDB 2v6e chain B Region: 40 - 66 Aligned: 27 Modelled: 27 Confidence: 5.6% Identity: 19% PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna Phyre2 PDB 1rzh chain H domain 1 Region: 159 - 175 Aligned: 17 Modelled: 17 Confidence: 5.5% Identity: 12% Fold: PRC-barrel domain Superfamily: PRC-barrel domain Family: Photosynthetic reaction centre, H-chain, cytoplasmic domain Phyre2 PDB 1k6n chain H Region: 159 - 175 Aligned: 17 Modelled: 17 Confidence: 5.3% Identity: 12% PDB header:photosynthesis Chain: H: PDB Molecule:photosynthetic reaction center h subunit; PDBTitle: e(l212)a,d(l213)a double mutant structure of photosynthetic reaction2 center from rhodobacter sphaeroides Phyre2 PDB 1z21 chain A domain 1 Region: 129 - 137 Aligned: 9 Modelled: 9 Confidence: 5.2% Identity: 11% Fold: Type III secretion system domain Superfamily: Type III secretion system domain Family: YopR Core Phyre2 1 c3ikmD_ 2 d1d9ca_ 3 d1eq1a_ 4 d1tula_ 5 d1u5ta1 6 c1g2cN_ 7 c2ai4A_ 8 d1eysh1 9 c2xvoB_ 10 c2i5nH_ 11 c2rigA_ 12 d2riga_ 13 c3aagA_ 14 c1u2zC_ 15 c3kf8C_ 16 c2v6eB_ 17 d1rzhh1 18 c1k6nH_ 19 d1z21a1

Detailed template information

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

1 c3ikmD_ 69.7 22 PDB header:transferase Chain: D: PDB Molecule:dna polymerase subunit gamma-1; PDBTitle: crystal structure of human mitochondrial dna polymerase2 holoenzyme 2 d1d9ca_ 14.3 30 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Interferons/interleukin-10 (IL-10) 3 d1eq1a_ 13.1 27 Fold:Apolipophorin-III Superfamily:Apolipophorin-III Family:Apolipophorin-III 4 d1tula_ 12.0 21 Fold:beta-clip Superfamily:Tlp20, baculovirus telokin-like protein Family:Tlp20, baculovirus telokin-like protein 5 d1u5ta1 11.7 33 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 6 c1g2cN_ 10.9 53 PDB header:viral protein Chain: N: PDB Molecule:fusion protein (f); PDBTitle: human respiratory syncytial virus fusion protein core 7 c2ai4A_ 10.6 39 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein so1698; PDBTitle: structure of protein of unknown function so1698 from shewanella2 oneidensis 8 d1eysh1 10.1 19 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:Photosynthetic reaction centre, H-chain, cytoplasmic domain 9 c2xvoB_ 9.3 38 PDB header:structural genomics Chain: B: PDB Molecule:sso1725; PDBTitle: sso1725, a protein involved in the crispr/cas pathway 10 c2i5nH_ 6.9 19 PDB header:photosynthesis Chain: H: PDB Molecule:reaction center protein h chain; PDBTitle: 1.96 a x-ray structure of photosynthetic reaction center from2 rhodopseudomonas viridis:crystals grown by microfluidic technique 11 c2rigA_ 6.8 5 PDB header:cytokine Chain: A: PDB Molecule:interferon-gamma; PDBTitle: crystal structure of recombinant rabbit interferon-gamma at2 2.7-angstroms resolution 12 d2riga_ 6.8 5 Fold:4-helical cytokines Superfamily:4-helical cytokines Family:Interferons/interleukin-10 (IL-10) 13 c3aagA_ 5.8 29 PDB header:transferase Chain: A: PDB Molecule:general glycosylation pathway protein; PDBTitle: crystal structure of c. jejuni pglb c-terminal domain 14 c1u2zC_ 5.8 23 PDB header:transferase Chain: C: PDB Molecule:histone-lysine n-methyltransferase, h3 lysine-79 PDBTitle: crystal structure of histone k79 methyltransferase dot1p2 from yeast 15 c3kf8C_ 5.7 38 PDB header:structural protein Chain: C: PDB Molecule:protein stn1; PDBTitle: crystal structure of c. tropicalis stn1-ten1 complex 16 c2v6eB_ 5.6 19 PDB header:hydrolase Chain: B: PDB Molecule:protelemorase; PDBTitle: protelomerase telk complexed with substrate dna 17 d1rzhh1 5.5 12 Fold:PRC-barrel domain Superfamily:PRC-barrel domain Family:Photosynthetic reaction centre, H-chain, cytoplasmic domain 18 c1k6nH_ 5.3 12 PDB header:photosynthesis Chain: H: PDB Molecule:photosynthetic reaction center h subunit; PDBTitle: e(l212)a,d(l213)a double mutant structure of photosynthetic reaction2 center from rhodobacter sphaeroides 19 d1z21a1 5.2 11 Fold:Type III secretion system domain Superfamily:Type III secretion system domain Family:YopR Core

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