Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	Q	V	I	F	N	E	E	W	M	V	E	Y	G	L	M	L	R	T	G	L	G	A	R	Q	I	E	A	Y	R	Q	N	C	W	V	E	G	F	H	F	K	R	V	S	P	L	G	K	P	D	S	K	R	G	I	I	W	Y	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																				?																				?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.
Sequence		Y	P	K	I	N	Q	F	I	K	D	S
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 2kvv chain A Region: 1 - 71 Aligned: 70 Modelled: 71 Confidence: 100.0% Identity: 73% PDB header:hydrolase Chain: A: PDB Molecule:putative excisionase; PDBTitle: solution nmr of putative excisionase from klebsiella pneumoniae,2 northeast structural genomics consortium target target kpr49 Phyre2 PDB 2fok chain A domain 4 Region: 36 - 59 Aligned: 21 Modelled: 21 Confidence: 14.0% Identity: 38% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Restriction endonuclease FokI, C-terminal (catalytic) domain Phyre2 PDB 3pc3 chain A Region: 5 - 23 Aligned: 19 Modelled: 19 Confidence: 13.0% Identity: 11% PDB header:lyase Chain: A: PDB Molecule:cg1753, isoform a; PDBTitle: full length structure of cystathionine beta-synthase from drosophila2 in complex with aminoacrylate Phyre2 PDB 1ffk chain F Region: 22 - 52 Aligned: 31 Modelled: 31 Confidence: 9.3% Identity: 29% Fold: alpha/beta-Hammerhead Superfamily: Ribosomal protein L16p/L10e Family: Ribosomal protein L10e Phyre2 PDB 1efe chain A Region: 23 - 56 Aligned: 34 Modelled: 34 Confidence: 9.1% Identity: 32% Fold: Insulin-like Superfamily: Insulin-like Family: Insulin-like Phyre2 PDB 2ih2 chain A domain 2 Region: 23 - 70 Aligned: 47 Modelled: 48 Confidence: 8.6% Identity: 21% Fold: DNA methylase specificity domain Superfamily: DNA methylase specificity domain Family: TaqI C-terminal domain-like Phyre2 PDB 1hp9 chain A Region: 29 - 38 Aligned: 10 Modelled: 10 Confidence: 8.5% Identity: 60% PDB header:toxin Chain: A: PDB Molecule:kappa-hefutoxin 1; PDBTitle: kappa-hefutoxins: a novel class of potassium channel toxins2 from scorpion venom Phyre2 PDB 2o2a chain A domain 1 Region: 27 - 46 Aligned: 20 Modelled: 19 Confidence: 6.6% Identity: 20% Fold: SecB-like Superfamily: SecB-like Family: SP1558-like Phyre2 PDB 1liu chain A domain 3 Region: 19 - 39 Aligned: 21 Modelled: 21 Confidence: 6.2% Identity: 29% Fold: Pyruvate kinase C-terminal domain-like Superfamily: PK C-terminal domain-like Family: Pyruvate kinase, C-terminal domain Phyre2 PDB 2lk2 chain A Region: 16 - 55 Aligned: 40 Modelled: 40 Confidence: 5.8% Identity: 23% PDB header:transcription Chain: A: PDB Molecule:homeobox protein tgif1; PDBTitle: solution nmr structure of homeobox domain (171-248) of human homeobox2 protein tgif1, northeast structural genomics consortium target3 hr4411b Phyre2 PDB 1a3x chain A domain 3 Region: 19 - 39 Aligned: 21 Modelled: 21 Confidence: 5.7% Identity: 29% Fold: Pyruvate kinase C-terminal domain-like Superfamily: PK C-terminal domain-like Family: Pyruvate kinase, C-terminal domain Phyre2 PDB 2hng chain A domain 1 Region: 31 - 46 Aligned: 16 Modelled: 16 Confidence: 5.6% Identity: 25% Fold: SecB-like Superfamily: SecB-like Family: SP1558-like Phyre2 1 c2kvvA_ 2 d2foka4 3 c3pc3A_ 4 d1ffkf_ 5 d1efea_ 6 d2ih2a2 7 c1hp9A_ 8 d2o2aa1 9 d1liua3 10 c2lk2A_ 11 d1a3xa3 12 d2hnga1

Detailed template information

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

1 c2kvvA_ 100.0 73 PDB header:hydrolase Chain: A: PDB Molecule:putative excisionase; PDBTitle: solution nmr of putative excisionase from klebsiella pneumoniae,2 northeast structural genomics consortium target target kpr49 2 d2foka4 14.0 38 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Restriction endonuclease FokI, C-terminal (catalytic) domain 3 c3pc3A_ 13.0 11 PDB header:lyase Chain: A: PDB Molecule:cg1753, isoform a; PDBTitle: full length structure of cystathionine beta-synthase from drosophila2 in complex with aminoacrylate 4 d1ffkf_ 9.3 29 Fold:alpha/beta-Hammerhead Superfamily:Ribosomal protein L16p/L10e Family:Ribosomal protein L10e 5 d1efea_ 9.1 32 Fold:Insulin-like Superfamily:Insulin-like Family:Insulin-like 6 d2ih2a2 8.6 21 Fold:DNA methylase specificity domain Superfamily:DNA methylase specificity domain Family:TaqI C-terminal domain-like 7 c1hp9A_ 8.5 60 PDB header:toxin Chain: A: PDB Molecule:kappa-hefutoxin 1; PDBTitle: kappa-hefutoxins: a novel class of potassium channel toxins2 from scorpion venom 8 d2o2aa1 6.6 20 Fold:SecB-like Superfamily:SecB-like Family:SP1558-like 9 d1liua3 6.2 29 Fold:Pyruvate kinase C-terminal domain-like Superfamily:PK C-terminal domain-like Family:Pyruvate kinase, C-terminal domain 10 c2lk2A_ 5.8 23 PDB header:transcription Chain: A: PDB Molecule:homeobox protein tgif1; PDBTitle: solution nmr structure of homeobox domain (171-248) of human homeobox2 protein tgif1, northeast structural genomics consortium target3 hr4411b 11 d1a3xa3 5.7 29 Fold:Pyruvate kinase C-terminal domain-like Superfamily:PK C-terminal domain-like Family:Pyruvate kinase, C-terminal domain 12 d2hnga1 5.6 25 Fold:SecB-like Superfamily:SecB-like Family:SP1558-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