Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	T	V	I	T	H	A	A	V	P	L	C	I	G	L	G	L	G	S	K	V	I	P	P	R	L	L	F	A	G	I	I	L	A	M	L	P	D	A	D	V	L	S	F	K	F	G	V	A	Y	G	N	V	F	G	H	R	G	F
Secondary structure
SS confidence
Disorder		?	?	?															?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	H	S	L	V	F	A	F	V	V	P	L	L	C	V	F	I	G	R	R	W	F	R	A	G	L	I	R	C	W	L	F	L	T	V	S	L	L	S	H	S	L	L	D	S	V	T	T	G	G	K	G	V	G	W	L	W	P	W	S
Secondary structure
SS confidence
Disorder																								?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.
Sequence		D	E	R	F	F	A	P	W	Q	V	I	K	V	A	P	F	A	L	S	R	Y	T	T	P	Y	G	H	Q	V	I	I	S	E	L	M	W	V	W	L	P	G	M	L	L	M	G	M	L	W	W	R	R	R
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 1mn3 chain A Region: 29 - 41 Aligned: 13 Modelled: 11 Confidence: 16.6% Identity: 23% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: CUE domain Phyre2 PDB 1p3q chain Q Region: 33 - 41 Aligned: 9 Modelled: 4 Confidence: 11.9% Identity: 33% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: CUE domain Phyre2 PDB 1p3q chain R Region: 35 - 41 Aligned: 7 Modelled: 3 Confidence: 8.8% Identity: 43% Fold: RuvA C-terminal domain-like Superfamily: UBA-like Family: CUE domain Phyre2 PDB 2jvy chain A Region: 36 - 44 Aligned: 9 Modelled: 9 Confidence: 8.2% Identity: 44% PDB header:metal binding protein Chain: A: PDB Molecule:nf-kappa-b essential modulator; PDBTitle: solution structure of the eda-id-related c417f mutant of2 human nemo zinc finger Phyre2 PDB 2gjv chain A domain 1 Region: 28 - 57 Aligned: 29 Modelled: 30 Confidence: 5.9% Identity: 17% Fold: Phage tail protein-like Superfamily: Phage tail protein-like Family: STM4215-like Phyre2 1 d1mn3a_ 2 d1p3qq_ 3 d1p3qr_ 4 c2jvyA_ 5 d2gjva1

Detailed template information

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

1 d1mn3a_ 16.6 23 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:CUE domain 2 d1p3qq_ 11.9 33 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:CUE domain 3 d1p3qr_ 8.8 43 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:CUE domain 4 c2jvyA_ 8.2 44 PDB header:metal binding protein Chain: A: PDB Molecule:nf-kappa-b essential modulator; PDBTitle: solution structure of the eda-id-related c417f mutant of2 human nemo zinc finger 5 d2gjva1 5.9 17 Fold:Phage tail protein-like Superfamily:Phage tail protein-like Family:STM4215-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