Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	Y	E	F	L	R	D	I	T	G	V	V	K	V	R	M	S	M	G	H	E	V	V	G	H	W	F	N	E	E	V	K	E	N	L	A	L	L	D	E	V	E	Q	A	A	H	A	L	K	G	S	E	R	S	W	Q	R	A	G
Secondary structure
SS confidence
Disorder		?	?	?	?																																																?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	E	Y	T	L	W	M	D	G	E	E	V	M	V	R	A	N	Q	L	E	F	A	G	D	E	M	E	E	G	M	N	Y	Y	D	E	E	S	L	S	L	C	G	V	E	D	F	L	Q	V	V	A	A	Y	R	N	F	V	Q	Q	K
Secondary structure
SS confidence
Disorder																			?	?	?	?	?	?	?	?	?	?																															?	?	?
Disorder confidence
Sequence
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 2ex3 chain B domain 1 Region: 1 - 46 Aligned: 36 Modelled: 46 Confidence: 41.8% Identity: 22% Fold: DNA terminal protein Superfamily: DNA terminal protein Family: DNA terminal protein Phyre2 PDB 2kbi chain A Region: 88 - 116 Aligned: 29 Modelled: 29 Confidence: 34.7% Identity: 24% PDB header:metal binding protein Chain: A: PDB Molecule:sodium channel protein type 5 subunit alpha; PDBTitle: solution nmr structure of the c-terminal ef-hand domain of2 human cardiac sodium channel nav1.5 Phyre2 PDB 1wi0 chain A Region: 40 - 93 Aligned: 44 Modelled: 54 Confidence: 22.9% Identity: 23% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 2npt chain A domain 1 Region: 68 - 93 Aligned: 20 Modelled: 26 Confidence: 14.9% Identity: 40% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 1m98 chain A Region: 20 - 31 Aligned: 12 Modelled: 12 Confidence: 13.3% Identity: 42% PDB header:unknown function Chain: A: PDB Molecule:orange carotenoid protein; PDBTitle: crystal structure of orange carotenoid protein Phyre2 PDB 2e1n chain A Region: 102 - 117 Aligned: 16 Modelled: 16 Confidence: 13.0% Identity: 0% PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex Phyre2 PDB 3m6j chain D Region: 21 - 32 Aligned: 12 Modelled: 12 Confidence: 12.7% Identity: 42% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of unknown function protein from leptospirillum2 rubarum Phyre2 PDB 1nwd chain B Region: 107 - 120 Aligned: 14 Modelled: 14 Confidence: 11.1% Identity: 36% PDB header:binding protein/hydrolase Chain: B: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase Phyre2 PDB 1nwd chain C Region: 107 - 120 Aligned: 14 Modelled: 14 Confidence: 11.1% Identity: 36% PDB header:binding protein/hydrolase Chain: C: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase Phyre2 PDB 2kbc chain B Region: 96 - 110 Aligned: 15 Modelled: 15 Confidence: 10.6% Identity: 47% PDB header:hormone Chain: B: PDB Molecule:insl5_b-chain; PDBTitle: solution structure of human insulin-like peptide 5 (insl5) Phyre2 PDB 2cy5 chain A domain 1 Region: 42 - 102 Aligned: 54 Modelled: 61 Confidence: 9.5% Identity: 20% Fold: PH domain-like barrel Superfamily: PH domain-like Family: Phosphotyrosine-binding domain (PTB) Phyre2 PDB 3obk chain H Region: 12 - 38 Aligned: 26 Modelled: 27 Confidence: 9.1% Identity: 8% PDB header:lyase Chain: H: PDB Molecule:delta-aminolevulinic acid dehydratase; PDBTitle: crystal structure of delta-aminolevulinic acid dehydratase2 (porphobilinogen synthase) from toxoplasma gondii me49 in complex3 with the reaction product porphobilinogen Phyre2 PDB 2dql chain A Region: 102 - 118 Aligned: 17 Modelled: 17 Confidence: 8.6% Identity: 6% PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena Phyre2 PDB 1k9u chain A Region: 84 - 113 Aligned: 30 Modelled: 30 Confidence: 8.1% Identity: 13% Fold: EF Hand-like Superfamily: EF-hand Family: Polcalcin Phyre2 PDB 1rij chain A Region: 21 - 30 Aligned: 10 Modelled: 10 Confidence: 6.6% Identity: 30% PDB header:de novo protein Chain: A: PDB Molecule:e6apn1 peptide; PDBTitle: e6-bind trp-cage (e6apn1) Phyre2 PDB 3c4r chain C Region: 23 - 49 Aligned: 26 Modelled: 27 Confidence: 5.6% Identity: 8% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein encoded by2 cryptic prophage Phyre2 PDB 2qv6 chain D Region: 25 - 45 Aligned: 20 Modelled: 21 Confidence: 5.5% Identity: 15% PDB header:hydrolase Chain: D: PDB Molecule:gtp cyclohydrolase iii; PDBTitle: gtp cyclohydrolase iii from m. jannaschii (mj0145)2 complexed with gtp and metal ions Phyre2 PDB 1tp6 chain A Region: 21 - 44 Aligned: 22 Modelled: 24 Confidence: 5.5% Identity: 23% Fold: Cystatin-like Superfamily: NTF2-like Family: PA1314-like Phyre2 1 d2ex3b1 2 c2kbiA_ 3 d1wi0a_ 4 d2npta1 5 c1m98A_ 6 c2e1nA_ 7 c3m6jD_ 8 c1nwdB_ 9 c1nwdC_ 10 c2kbcB_ 11 d2cy5a1 12 c3obkH_ 13 c2dqlA_ 14 d1k9ua_ 15 c1rijA_ 16 c3c4rC_ 17 c2qv6D_ 18 d1tp6a_

Detailed template information

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

1 d2ex3b1 41.8 22 Fold:DNA terminal protein Superfamily:DNA terminal protein Family:DNA terminal protein 2 c2kbiA_ 34.7 24 PDB header:metal binding protein Chain: A: PDB Molecule:sodium channel protein type 5 subunit alpha; PDBTitle: solution nmr structure of the c-terminal ef-hand domain of2 human cardiac sodium channel nav1.5 3 d1wi0a_ 22.9 23 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 4 d2npta1 14.9 40 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 5 c1m98A_ 13.3 42 PDB header:unknown function Chain: A: PDB Molecule:orange carotenoid protein; PDBTitle: crystal structure of orange carotenoid protein 6 c2e1nA_ 13.0 0 PDB header:circadian clock protein Chain: A: PDB Molecule:pex; PDBTitle: crystal structure of the cyanobacterium circadian clock modifier pex 7 c3m6jD_ 12.7 42 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of unknown function protein from leptospirillum2 rubarum 8 c1nwdB_ 11.1 36 PDB header:binding protein/hydrolase Chain: B: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase 9 c1nwdC_ 11.1 36 PDB header:binding protein/hydrolase Chain: C: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase 10 c2kbcB_ 10.6 47 PDB header:hormone Chain: B: PDB Molecule:insl5_b-chain; PDBTitle: solution structure of human insulin-like peptide 5 (insl5) 11 d2cy5a1 9.5 20 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Phosphotyrosine-binding domain (PTB) 12 c3obkH_ 9.1 8 PDB header:lyase Chain: H: PDB Molecule:delta-aminolevulinic acid dehydratase; PDBTitle: crystal structure of delta-aminolevulinic acid dehydratase2 (porphobilinogen synthase) from toxoplasma gondii me49 in complex3 with the reaction product porphobilinogen 13 c2dqlA_ 8.6 6 PDB header:circadian clock protein Chain: A: PDB Molecule:pex protein; PDBTitle: crytal structure of the circadian clock associated protein2 pex from anabaena 14 d1k9ua_ 8.1 13 Fold:EF Hand-like Superfamily:EF-hand Family:Polcalcin 15 c1rijA_ 6.6 30 PDB header:de novo protein Chain: A: PDB Molecule:e6apn1 peptide; PDBTitle: e6-bind trp-cage (e6apn1) 16 c3c4rC_ 5.6 8 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an uncharacterized protein encoded by2 cryptic prophage 17 c2qv6D_ 5.5 15 PDB header:hydrolase Chain: D: PDB Molecule:gtp cyclohydrolase iii; PDBTitle: gtp cyclohydrolase iii from m. jannaschii (mj0145)2 complexed with gtp and metal ions 18 d1tp6a_ 5.5 23 Fold:Cystatin-like Superfamily:NTF2-like Family:PA1314-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