Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	Y	A	G	H	K	K	L	R	A	D	V	A	E	V	A	N	T	M	C	D	L	R	A	R	L	N	D	M	E	H	R	C	R	F	D	S	D	V	L	V	E	R	L	A	R	Q	T	L	Y	R	A	N	R	L	F	M	E	A
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.
Sequence		Y	T	E	I	L	E	L	D	A	C	F	K	D
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 2jok chain A domain 1 Region: 14 - 35 Aligned: 22 Modelled: 22 Confidence: 10.7% Identity: 32% Fold: SopE-like GEF domain Superfamily: SopE-like GEF domain Family: SopE-like GEF domain Phyre2 PDB 2kel chain B Region: 22 - 29 Aligned: 8 Modelled: 8 Confidence: 9.7% Identity: 50% PDB header:transcription repressor Chain: B: PDB Molecule:uncharacterized protein 56b; PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1 Phyre2 PDB 1sg7 chain A Region: 51 - 66 Aligned: 16 Modelled: 16 Confidence: 8.4% Identity: 19% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative cation transport regulator chab; PDBTitle: nmr solution structure of the putative cation transport2 regulator chab Phyre2 PDB 1sg7 chain A domain 1 Region: 51 - 66 Aligned: 16 Modelled: 16 Confidence: 8.4% Identity: 19% Fold: ChaB-like Superfamily: ChaB-like Family: ChaB-like Phyre2 PDB 3swf chain A Region: 8 - 33 Aligned: 26 Modelled: 26 Confidence: 7.5% Identity: 23% PDB header:transport protein Chain: A: PDB Molecule:cgmp-gated cation channel alpha-1; PDBTitle: cnga1 621-690 containing clz domain Phyre2 PDB 1wnk chain A Region: 42 - 56 Aligned: 15 Modelled: 15 Confidence: 7.3% Identity: 53% PDB header:transcription Chain: A: PDB Molecule:fibroin-modulator-binding-protein-1; PDBTitle: nmr structure of fmbp-1 tandem repeat 3 in 30%(v/v) tfe2 solution Phyre2 PDB 1s35 chain A domain 2 Region: 6 - 48 Aligned: 43 Modelled: 43 Confidence: 7.0% Identity: 9% Fold: Spectrin repeat-like Superfamily: Spectrin repeat Family: Spectrin repeat Phyre2 PDB 1ka8 chain A Region: 47 - 63 Aligned: 17 Modelled: 17 Confidence: 6.6% Identity: 41% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: P4 origin-binding domain-like Phyre2 PDB 3t38 chain B Region: 40 - 56 Aligned: 17 Modelled: 17 Confidence: 6.4% Identity: 24% PDB header:oxidoreductase Chain: B: PDB Molecule:arsenate reductase; PDBTitle: corynebacterium glutamicum thioredoxin-dependent arsenate reductase2 cg_arsc1' Phyre2 PDB 1u5p chain A domain 1 Region: 6 - 55 Aligned: 50 Modelled: 50 Confidence: 6.3% Identity: 16% Fold: Spectrin repeat-like Superfamily: Spectrin repeat Family: Spectrin repeat Phyre2 PDB 1u5p chain A domain 2 Region: 6 - 48 Aligned: 43 Modelled: 43 Confidence: 6.2% Identity: 19% Fold: Spectrin repeat-like Superfamily: Spectrin repeat Family: Spectrin repeat Phyre2 PDB 2spc chain A Region: 6 - 56 Aligned: 51 Modelled: 51 Confidence: 6.1% Identity: 8% Fold: Spectrin repeat-like Superfamily: Spectrin repeat Family: Spectrin repeat Phyre2 PDB 1hci chain A domain 4 Region: 6 - 51 Aligned: 46 Modelled: 46 Confidence: 5.9% Identity: 11% Fold: Spectrin repeat-like Superfamily: Spectrin repeat Family: Spectrin repeat Phyre2 PDB 1wlx chain A Region: 6 - 39 Aligned: 34 Modelled: 34 Confidence: 5.3% Identity: 6% PDB header:protein binding Chain: A: PDB Molecule:alpha-actinin 4; PDBTitle: solution structure of the third spectrin repeat of alpha-2 actinin-4 Phyre2 1 d2joka1 2 c2kelB_ 3 c1sg7A_ 4 d1sg7a1 5 c3swfA_ 6 c1wnkA_ 7 d1s35a2 8 d1ka8a_ 9 c3t38B_ 10 d1u5pa1 11 d1u5pa2 12 d2spca_ 13 d1hcia4 14 c1wlxA_

Detailed template information

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

1 d2joka1 10.7 32 Fold:SopE-like GEF domain Superfamily:SopE-like GEF domain Family:SopE-like GEF domain 2 c2kelB_ 9.7 50 PDB header:transcription repressor Chain: B: PDB Molecule:uncharacterized protein 56b; PDBTitle: structure of the transcription regulator svtr from the2 hyperthermophilic archaeal virus sirv1 3 c1sg7A_ 8.4 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative cation transport regulator chab; PDBTitle: nmr solution structure of the putative cation transport2 regulator chab 4 d1sg7a1 8.4 19 Fold:ChaB-like Superfamily:ChaB-like Family:ChaB-like 5 c3swfA_ 7.5 23 PDB header:transport protein Chain: A: PDB Molecule:cgmp-gated cation channel alpha-1; PDBTitle: cnga1 621-690 containing clz domain 6 c1wnkA_ 7.3 53 PDB header:transcription Chain: A: PDB Molecule:fibroin-modulator-binding-protein-1; PDBTitle: nmr structure of fmbp-1 tandem repeat 3 in 30%(v/v) tfe2 solution 7 d1s35a2 7.0 9 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 8 d1ka8a_ 6.6 41 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:P4 origin-binding domain-like 9 c3t38B_ 6.4 24 PDB header:oxidoreductase Chain: B: PDB Molecule:arsenate reductase; PDBTitle: corynebacterium glutamicum thioredoxin-dependent arsenate reductase2 cg_arsc1' 10 d1u5pa1 6.3 16 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 11 d1u5pa2 6.2 19 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 12 d2spca_ 6.1 8 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 13 d1hcia4 5.9 11 Fold:Spectrin repeat-like Superfamily:Spectrin repeat Family:Spectrin repeat 14 c1wlxA_ 5.3 6 PDB header:protein binding Chain: A: PDB Molecule:alpha-actinin 4; PDBTitle: solution structure of the third spectrin repeat of alpha-2 actinin-4

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