Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	P	T	Q	E	A	K	A	H	H	V	G	E	W	A	S	L	R	N	T	S	P	E	I	A	E	A	I	F	E	V	A	G	Y	D	E	K	M	A	E	K	I	W	E	E	G	S	D	E	V	L	V	K	A	F	A	K	T	D	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?			?									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.
Sequence		D	S	L	F	W	G	E	Q	T	I	E	R	K	N	V
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 1kft chain A Region: 3 - 44 Aligned: 39 Modelled: 42 Confidence: 16.3% Identity: 33% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Excinuclease UvrC C-terminal domain Phyre2 PDB 1kft chain A Region: 3 - 44 Aligned: 39 Modelled: 42 Confidence: 16.3% Identity: 33% PDB header:dna binding protein Chain: A: PDB Molecule:excinuclease abc subunit c; PDBTitle: solution structure of the c-terminal domain of uvrc from e-2 coli Phyre2 PDB 1qgi chain A Region: 11 - 75 Aligned: 65 Modelled: 65 Confidence: 14.9% Identity: 20% Fold: Lysozyme-like Superfamily: Lysozyme-like Family: Chitosanase Phyre2 PDB 1x2i chain A domain 1 Region: 3 - 44 Aligned: 39 Modelled: 42 Confidence: 13.9% Identity: 26% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1pcf chain A Region: 1 - 28 Aligned: 28 Modelled: 28 Confidence: 9.0% Identity: 18% Fold: ssDNA-binding transcriptional regulator domain Superfamily: ssDNA-binding transcriptional regulator domain Family: Transcriptional coactivator PC4 C-terminal domain Phyre2 PDB 2aq0 chain A domain 1 Region: 9 - 44 Aligned: 32 Modelled: 36 Confidence: 8.3% Identity: 25% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 2i9c chain A domain 1 Region: 21 - 47 Aligned: 27 Modelled: 27 Confidence: 6.6% Identity: 22% Fold: alpha-alpha superhelix Superfamily: ARM repeat Family: RPA1889-like Phyre2 PDB 2f22 chain A domain 1 Region: 47 - 70 Aligned: 24 Modelled: 22 Confidence: 6.2% Identity: 38% Fold: DinB/YfiT-like putative metalloenzymes Superfamily: DinB/YfiT-like putative metalloenzymes Family: DinB-like Phyre2 PDB 2jtt chain D Region: 38 - 50 Aligned: 13 Modelled: 13 Confidence: 5.8% Identity: 38% PDB header:calcium binding protein/antitumor protei Chain: D: PDB Molecule:calcyclin-binding protein; PDBTitle: solution structure of calcium loaded s100a6 bound to c-2 terminal siah-1 interacting protein Phyre2 PDB 2bgw chain A domain 1 Region: 3 - 44 Aligned: 39 Modelled: 42 Confidence: 5.7% Identity: 33% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Hef domain-like Phyre2 PDB 1b22 chain A Region: 15 - 45 Aligned: 28 Modelled: 31 Confidence: 5.2% Identity: 21% Fold: SAM domain-like Superfamily: Rad51 N-terminal domain-like Family: DNA repair protein Rad51, N-terminal domain Phyre2 1 d1kfta_ 2 c1kftA_ 3 d1qgia_ 4 d1x2ia1 5 d1pcfa_ 6 d2aq0a1 7 d2i9ca1 8 d2f22a1 9 c2jttD_ 10 d2bgwa1 11 d1b22a_

Detailed template information

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

1 d1kfta_ 16.3 33 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Excinuclease UvrC C-terminal domain 2 c1kftA_ 16.3 33 PDB header:dna binding protein Chain: A: PDB Molecule:excinuclease abc subunit c; PDBTitle: solution structure of the c-terminal domain of uvrc from e-2 coli 3 d1qgia_ 14.9 20 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Chitosanase 4 d1x2ia1 13.9 26 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 5 d1pcfa_ 9.0 18 Fold:ssDNA-binding transcriptional regulator domain Superfamily:ssDNA-binding transcriptional regulator domain Family:Transcriptional coactivator PC4 C-terminal domain 6 d2aq0a1 8.3 25 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 7 d2i9ca1 6.6 22 Fold:alpha-alpha superhelix Superfamily:ARM repeat Family:RPA1889-like 8 d2f22a1 6.2 38 Fold:DinB/YfiT-like putative metalloenzymes Superfamily:DinB/YfiT-like putative metalloenzymes Family:DinB-like 9 c2jttD_ 5.8 38 PDB header:calcium binding protein/antitumor protei Chain: D: PDB Molecule:calcyclin-binding protein; PDBTitle: solution structure of calcium loaded s100a6 bound to c-2 terminal siah-1 interacting protein 10 d2bgwa1 5.7 33 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Hef domain-like 11 d1b22a_ 5.2 21 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain

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