Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	K	L	V	S	D	G	S	V	K	K	I	N	Y	P	V	L	Y	E	S	G	I	T	P	P	L	C	E	V	S	A	P	E	P	D	A	G	G	K	R	I	V	A	Y	V	Y	K	S	S	R	S	T	V	F	E	N	P	D	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																								?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.
Sequence		V	K	T	C	T	V	R	D	L	K	K	D	F	V	N	C	D	E	K	G	E	G	Q
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 2h7a chain A domain 1 Region: 39 - 51 Aligned: 13 Modelled: 13 Confidence: 16.4% Identity: 31% Fold: YcgL-like Superfamily: YcgL-like Family: YcgL-like Phyre2 PDB 1sqr chain A Region: 39 - 51 Aligned: 12 Modelled: 13 Confidence: 10.2% Identity: 25% Fold: Reductase/isomerase/elongation factor common domain Superfamily: Translation proteins Family: Ribosomal protein L35ae Phyre2 PDB 2l5q chain A Region: 36 - 83 Aligned: 46 Modelled: 48 Confidence: 8.9% Identity: 22% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of bvu_3817 from bacteroides vulgatus,2 northeast structural genomics consortium target bvr159 Phyre2 PDB 3g6n chain A Region: 40 - 76 Aligned: 37 Modelled: 37 Confidence: 8.1% Identity: 35% PDB header:hydrolase Chain: A: PDB Molecule:peptide deformylase; PDBTitle: crystal structure of an efpdf complex with met-ala-ser Phyre2 PDB 1msv chain B Region: 39 - 64 Aligned: 26 Modelled: 26 Confidence: 6.8% Identity: 31% PDB header:lyase Chain: B: PDB Molecule:s-adenosylmethionine decarboxylase proenzyme; PDBTitle: the s68a s-adenosylmethionine decarboxylase proenzyme2 processing mutant. Phyre2 PDB 1jl0 chain A Region: 39 - 64 Aligned: 26 Modelled: 26 Confidence: 6.4% Identity: 35% Fold: S-adenosylmethionine decarboxylase Superfamily: S-adenosylmethionine decarboxylase Family: S-adenosylmethionine decarboxylase Phyre2 PDB 2k2o chain A Region: 33 - 51 Aligned: 19 Modelled: 19 Confidence: 6.2% Identity: 32% PDB header:membrane protein Chain: A: PDB Molecule:myoferlin; PDBTitle: solution structure of the inner dysf domain of human2 myoferlin Phyre2 PDB 2bjq chain A domain 1 Region: 13 - 76 Aligned: 64 Modelled: 64 Confidence: 6.1% Identity: 16% Fold: MFPT repeat-like Superfamily: MFPT repeat-like Family: MFPT repeat Phyre2 PDB 2zgw chain A domain 1 Region: 7 - 15 Aligned: 9 Modelled: 9 Confidence: 5.4% Identity: 56% Fold: SH3-like barrel Superfamily: C-terminal domain of transcriptional repressors Family: Biotin repressor (BirA) Phyre2 1 d2h7aa1 2 d1sqra_ 3 c2l5qA_ 4 c3g6nA_ 5 c1msvB_ 6 d1jl0a_ 7 c2k2oA_ 8 d2bjqa1 9 d2zgwa1

Detailed template information

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

1 d2h7aa1 16.4 31 Fold:YcgL-like Superfamily:YcgL-like Family:YcgL-like 2 d1sqra_ 10.2 25 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Ribosomal protein L35ae 3 c2l5qA_ 8.9 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution nmr structure of bvu_3817 from bacteroides vulgatus,2 northeast structural genomics consortium target bvr159 4 c3g6nA_ 8.1 35 PDB header:hydrolase Chain: A: PDB Molecule:peptide deformylase; PDBTitle: crystal structure of an efpdf complex with met-ala-ser 5 c1msvB_ 6.8 31 PDB header:lyase Chain: B: PDB Molecule:s-adenosylmethionine decarboxylase proenzyme; PDBTitle: the s68a s-adenosylmethionine decarboxylase proenzyme2 processing mutant. 6 d1jl0a_ 6.4 35 Fold:S-adenosylmethionine decarboxylase Superfamily:S-adenosylmethionine decarboxylase Family:S-adenosylmethionine decarboxylase 7 c2k2oA_ 6.2 32 PDB header:membrane protein Chain: A: PDB Molecule:myoferlin; PDBTitle: solution structure of the inner dysf domain of human2 myoferlin 8 d2bjqa1 6.1 16 Fold:MFPT repeat-like Superfamily:MFPT repeat-like Family:MFPT repeat 9 d2zgwa1 5.4 56 Fold:SH3-like barrel Superfamily:C-terminal domain of transcriptional repressors Family:Biotin repressor (BirA)

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