Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	I	E	F	S	Q	I	H	E	M	V	Y	M	H	D	I	V	N	S	D	S	K	K	K	P	R	I	P	L	K	K	F	L	N	A	E	N	V	L	T	Q	T	T	S	W	T	L	N	S	R	Y	V	N	V	N	S	V	N	K
Secondary structure
SS confidence
Disorder		?	?	?	?																		?	?			?	?												?	?																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	N	V	K	S	K	V	K	N	S	Y	I	S	R	S	V	N	D	E	F	S	L	T	D	D	E	I	N	S	F	K	E	T	L	V	L	S	S	I	D	S	L	S	K	L	V	L	N	N	P	L	S	V	L	F	T	S	T	V	R
Secondary structure
SS confidence
Disorder		?		?				?																														?																							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.
Sequence		R	N	N	N	R	A	K	M	N	V	E	F	D	S	W	I	C	T	R	C	C
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 3fjv chain A Region: 7 - 21 Aligned: 15 Modelled: 15 Confidence: 26.0% Identity: 40% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized novel protein; PDBTitle: crystal structure of novel protein of unknown function (yp_111841.1)2 from burkholderia pseudomallei k96243 at 1.90 a resolution Phyre2 PDB 3kik chain F Region: 97 - 121 Aligned: 25 Modelled: 25 Confidence: 17.8% Identity: 48% PDB header:transcription Chain: F: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 3kik chain G Region: 97 - 121 Aligned: 25 Modelled: 25 Confidence: 17.3% Identity: 48% PDB header:transcription Chain: G: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 3kik chain H Region: 97 - 121 Aligned: 25 Modelled: 25 Confidence: 17.2% Identity: 48% PDB header:transcription Chain: H: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 3kik chain E Region: 97 - 121 Aligned: 25 Modelled: 25 Confidence: 17.2% Identity: 48% PDB header:transcription Chain: E: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 2lk0 chain A Region: 132 - 140 Aligned: 9 Modelled: 9 Confidence: 16.3% Identity: 44% PDB header:rna binding protein Chain: A: PDB Molecule:rna-binding protein 5; PDBTitle: solution structure and binding studies of the ranbp2-type zinc finger2 of rbm5 Phyre2 PDB 2ftu chain A domain 1 Region: 82 - 94 Aligned: 13 Modelled: 13 Confidence: 14.1% Identity: 54% Fold: RAP domain-like Superfamily: RAP domain-like Family: RAP domain Phyre2 PDB 2fcw chain A domain 1 Region: 82 - 94 Aligned: 13 Modelled: 13 Confidence: 13.8% Identity: 54% Fold: RAP domain-like Superfamily: RAP domain-like Family: RAP domain Phyre2 PDB 3kjl chain F Region: 99 - 121 Aligned: 23 Modelled: 23 Confidence: 7.7% Identity: 48% PDB header:transcription Chain: F: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 3kjl chain H Region: 99 - 121 Aligned: 23 Modelled: 23 Confidence: 7.0% Identity: 48% PDB header:transcription Chain: H: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 3kjl chain E Region: 99 - 121 Aligned: 23 Modelled: 23 Confidence: 7.0% Identity: 48% PDB header:transcription Chain: E: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex Phyre2 PDB 1htr chain P Region: 26 - 33 Aligned: 8 Modelled: 8 Confidence: 6.9% Identity: 63% PDB header:aspartyl protease Chain: P: PDB Molecule:progastricsin (pro segment); PDBTitle: crystal and molecular structures of human progastricsin at 1.622 angstroms resolution Phyre2 PDB 2fct chain A domain 1 Region: 79 - 92 Aligned: 14 Modelled: 14 Confidence: 6.0% Identity: 36% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: PhyH-like Phyre2 1 c3fjvA_ 2 c3kikF_ 3 c3kikG_ 4 c3kikH_ 5 c3kikE_ 6 c2lk0A_ 7 d2ftua1 8 d2fcwa1 9 c3kjlF_ 10 c3kjlH_ 11 c3kjlE_ 12 c1htrP_ 13 d2fcta1

Detailed template information

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

1 c3fjvA_ 26.0 40 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized novel protein; PDBTitle: crystal structure of novel protein of unknown function (yp_111841.1)2 from burkholderia pseudomallei k96243 at 1.90 a resolution 2 c3kikF_ 17.8 48 PDB header:transcription Chain: F: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 3 c3kikG_ 17.3 48 PDB header:transcription Chain: G: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 4 c3kikH_ 17.2 48 PDB header:transcription Chain: H: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 5 c3kikE_ 17.2 48 PDB header:transcription Chain: E: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 6 c2lk0A_ 16.3 44 PDB header:rna binding protein Chain: A: PDB Molecule:rna-binding protein 5; PDBTitle: solution structure and binding studies of the ranbp2-type zinc finger2 of rbm5 7 d2ftua1 14.1 54 Fold:RAP domain-like Superfamily:RAP domain-like Family:RAP domain 8 d2fcwa1 13.8 54 Fold:RAP domain-like Superfamily:RAP domain-like Family:RAP domain 9 c3kjlF_ 7.7 48 PDB header:transcription Chain: F: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 10 c3kjlH_ 7.0 48 PDB header:transcription Chain: H: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 11 c3kjlE_ 7.0 48 PDB header:transcription Chain: E: PDB Molecule:saga-associated factor 11; PDBTitle: sgf11:sus1 complex 12 c1htrP_ 6.9 63 PDB header:aspartyl protease Chain: P: PDB Molecule:progastricsin (pro segment); PDBTitle: crystal and molecular structures of human progastricsin at 1.622 angstroms resolution 13 d2fcta1 6.0 36 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:PhyH-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