Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	E	L	Y	R	E	Y	P	A	W	L	I	F	L	R	R	T	Y	A	V	A	A	G	V	L	A	L	P	F	M	L	F	W	K	D	R	A	R	F	Y	S	Y	L	H	R	V	W	S	K	T	S	D	K	P	V	W	M	D	Q	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.
Sequence		E	K	A	T	G	D	F	Y
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 2lev chain A Region: 47 - 66 Aligned: 20 Modelled: 20 Confidence: 13.4% Identity: 25% PDB header:transcription regulator/dna Chain: A: PDB Molecule:ler; PDBTitle: structure of the dna complex of the c-terminal domain of ler Phyre2 PDB 3fd9 chain C Region: 35 - 50 Aligned: 16 Modelled: 16 Confidence: 10.3% Identity: 19% PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the transcriptional anti-activator exsd2 from pseudomonas aeruginosa Phyre2 PDB 1t3t chain A domain 7 Region: 41 - 54 Aligned: 14 Modelled: 14 Confidence: 8.6% Identity: 21% Fold: PurM C-terminal domain-like Superfamily: PurM C-terminal domain-like Family: PurM C-terminal domain-like Phyre2 PDB 1vyt chain E Region: 56 - 63 Aligned: 8 Modelled: 7 Confidence: 7.0% Identity: 50% PDB header:transport protein Chain: E: PDB Molecule:voltage-dependent l-type calcium channel PDBTitle: beta3 subunit complexed with aid Phyre2 PDB 1rlj chain A Region: 34 - 54 Aligned: 21 Modelled: 21 Confidence: 6.4% Identity: 38% Fold: Flavodoxin-like Superfamily: Flavoproteins Family: Flavoprotein NrdI Phyre2 PDB 3thg chain A Region: 28 - 49 Aligned: 22 Modelled: 22 Confidence: 6.4% Identity: 32% PDB header:protein binding Chain: A: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase activase 1, PDBTitle: crystal structure of the creosote rubisco activase c-domain Phyre2 PDB 1x9b chain A Region: 34 - 45 Aligned: 12 Modelled: 12 Confidence: 6.0% Identity: 42% Fold: Protozoan pheromone-like Superfamily: Hypothetical membrane protein Ta0354, soluble domain Family: Hypothetical membrane protein Ta0354, soluble domain Phyre2 PDB 2knc chain A Region: 8 - 40 Aligned: 29 Modelled: 33 Confidence: 5.7% Identity: 24% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2d0w chain A Region: 35 - 64 Aligned: 30 Modelled: 30 Confidence: 5.6% Identity: 7% PDB header:electron transport Chain: A: PDB Molecule:cytochrome cl; PDBTitle: crystal structure of cytochrome cl from hyphomicrobium2 denitrificans Phyre2 1 c2levA_ 2 c3fd9C_ 3 d1t3ta7 4 c1vytE_ 5 d1rlja_ 6 c3thgA_ 7 d1x9ba_ 8 c2kncA_ 9 c2d0wA_

Detailed template information

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

1 c2levA_ 13.4 25 PDB header:transcription regulator/dna Chain: A: PDB Molecule:ler; PDBTitle: structure of the dna complex of the c-terminal domain of ler 2 c3fd9C_ 10.3 19 PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the transcriptional anti-activator exsd2 from pseudomonas aeruginosa 3 d1t3ta7 8.6 21 Fold:PurM C-terminal domain-like Superfamily:PurM C-terminal domain-like Family:PurM C-terminal domain-like 4 c1vytE_ 7.0 50 PDB header:transport protein Chain: E: PDB Molecule:voltage-dependent l-type calcium channel PDBTitle: beta3 subunit complexed with aid 5 d1rlja_ 6.4 38 Fold:Flavodoxin-like Superfamily:Flavoproteins Family:Flavoprotein NrdI 6 c3thgA_ 6.4 32 PDB header:protein binding Chain: A: PDB Molecule:ribulose bisphosphate carboxylase/oxygenase activase 1, PDBTitle: crystal structure of the creosote rubisco activase c-domain 7 d1x9ba_ 6.0 42 Fold:Protozoan pheromone-like Superfamily:Hypothetical membrane protein Ta0354, soluble domain Family:Hypothetical membrane protein Ta0354, soluble domain 8 c2kncA_ 5.7 24 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 9 c2d0wA_ 5.6 7 PDB header:electron transport Chain: A: PDB Molecule:cytochrome cl; PDBTitle: crystal structure of cytochrome cl from hyphomicrobium2 denitrificans

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