Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	L	E	T	A	F	M	L	P	V	Q	D	A	Q	H	S	F	R	R	L	L	K	A	M	S	E	P	G	V	I	V	A	L	H	Q	L	K	R	G	W	Q	P	L	N	I	A	T	T	S	V	L	L	T	L	A	D	N	D	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?																														?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		P	V	W	L	S	T	P	L	N	N	D	I	V	N	Q	S	L	R	F	H	T	N	A	P	L	V	S	Q	P	E	Q	A	T	F	A	V	T	D	E	A	I	S	S	E	Q	L	N	A	L	S	T	G	T	A	V	A	P	E	A	G
Secondary structure
SS confidence
Disorder								?	?																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	T	L	I	L	Q	V	A	S	L	S	G	G	R	M	L	R	L	T	G	A	G	I	A	E	E	R	M	I	A	P	Q	L	P	E	C	I	L	H	E	L	T	E	R	P	H	P	F	P	L	G	I	D	L	I	L	T	C	G	E
Secondary structure
SS confidence
Disorder											?			?																																	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.
Sequence		R	L	L	A	I	P	R	T	T	H	V	E	V	C
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 2fsu chain A Region: 12 - 194 Aligned: 170 Modelled: 176 Confidence: 100.0% Identity: 95% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein phnh; PDBTitle: crystal structure of the phnh protein from escherichia coli Phyre2 PDB 2fsu chain A domain 1 Region: 12 - 194 Aligned: 170 Modelled: 172 Confidence: 100.0% Identity: 95% Fold: PLP-dependent transferase-like Superfamily: PhnH-like Family: PhnH-like Phyre2 PDB 1i4a chain A Region: 4 - 21 Aligned: 17 Modelled: 18 Confidence: 47.6% Identity: 24% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 1w3w chain A Region: 4 - 21 Aligned: 17 Modelled: 18 Confidence: 25.6% Identity: 24% PDB header:coagulation Chain: A: PDB Molecule:annexin a8; PDBTitle: the 2.1 angstroem resolution structure of annexin a8 Phyre2 PDB 3s9x chain A Region: 172 - 194 Aligned: 23 Modelled: 23 Confidence: 24.7% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asch domain; PDBTitle: high resolution crystal structure of asch domain from lactobacillus2 crispatus jv v101 Phyre2 PDB 1t62 chain A Region: 172 - 194 Aligned: 23 Modelled: 23 Confidence: 23.5% Identity: 48% Fold: PUA domain-like Superfamily: PUA domain-like Family: Hypothetical protein EF3133 Phyre2 PDB 1qjw chain A Region: 42 - 130 Aligned: 89 Modelled: 89 Confidence: 22.3% Identity: 19% Fold: 7-stranded beta/alpha barrel Superfamily: Glycosyl hydrolases family 6, cellulases Family: Glycosyl hydrolases family 6, cellulases Phyre2 PDB 2c7f chain A domain 1 Region: 116 - 149 Aligned: 34 Modelled: 34 Confidence: 21.4% Identity: 9% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: Composite domain of glycosyl hydrolase families 5, 30, 39 and 51 Phyre2 PDB 3fdf chain A Region: 125 - 154 Aligned: 30 Modelled: 30 Confidence: 19.4% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:fr253; PDBTitle: crystal structure of the serine phosphatase of rna2 polymerase ii ctd (ssu72 superfamily) from drosophila3 melanogaster. orthorhombic crystal form. northeast4 structural genomics consortium target fr253. Phyre2 PDB 1dd1 chain A Region: 90 - 142 Aligned: 53 Modelled: 53 Confidence: 18.7% Identity: 11% Fold: SMAD/FHA domain Superfamily: SMAD/FHA domain Family: SMAD domain Phyre2 PDB 3o2q chain B Region: 125 - 154 Aligned: 30 Modelled: 30 Confidence: 18.7% Identity: 17% PDB header:hydrolase Chain: B: PDB Molecule:rna polymerase ii subunit a c-terminal domain phosphatase PDBTitle: crystal structure of the human symplekin-ssu72-ctd phosphopeptide2 complex Phyre2 PDB 1ygs chain A Region: 90 - 142 Aligned: 53 Modelled: 53 Confidence: 14.9% Identity: 11% Fold: SMAD/FHA domain Superfamily: SMAD/FHA domain Family: SMAD domain Phyre2 PDB 1hm6 chain A Region: 1 - 21 Aligned: 20 Modelled: 21 Confidence: 14.4% Identity: 15% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 3o2s chain B Region: 125 - 154 Aligned: 30 Modelled: 30 Confidence: 14.2% Identity: 17% PDB header:hydrolase Chain: B: PDB Molecule:rna polymerase ii subunit a c-terminal domain phosphatase PDBTitle: crystal structure of the human symplekin-ssu72 complex Phyre2 PDB 1hvd chain A Region: 1 - 21 Aligned: 20 Modelled: 21 Confidence: 12.7% Identity: 20% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 1ain chain A Region: 4 - 21 Aligned: 17 Modelled: 18 Confidence: 12.0% Identity: 18% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 1avc chain A domain 1 Region: 1 - 21 Aligned: 20 Modelled: 21 Confidence: 11.4% Identity: 25% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 2nn6 chain H domain 3 Region: 166 - 182 Aligned: 17 Modelled: 17 Confidence: 11.3% Identity: 29% Fold: Eukaryotic type KH-domain (KH-domain type I) Superfamily: Eukaryotic type KH-domain (KH-domain type I) Family: Eukaryotic type KH-domain (KH-domain type I) Phyre2 PDB 1m9i chain A domain 1 Region: 1 - 21 Aligned: 20 Modelled: 21 Confidence: 10.9% Identity: 25% Fold: Annexin Superfamily: Annexin Family: Annexin Phyre2 PDB 1avc chain A Region: 5 - 21 Aligned: 16 Modelled: 17 Confidence: 10.7% Identity: 31% PDB header:calcium/phospholipid-binding protein Chain: A: PDB Molecule:annexin vi; PDBTitle: bovine annexin vi (calcium-bound) Phyre2 1 c2fsuA_ 2 d2fsua1 3 d1i4aa_ 4 c1w3wA_ 5 c3s9xA_ 6 d1t62a_ 7 d1qjwa_ 8 d2c7fa1 9 c3fdfA_ 10 d1dd1a_ 11 c3o2qB_ 12 d1ygsa_ 13 d1hm6a_ 14 c3o2sB_ 15 d1hvda_ 16 d1aina_ 17 d1avca1 18 d2nn6h3 19 d1m9ia1 20 c1avcA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34

Detailed template information

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

1 c2fsuA_ 100.0 95 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein phnh; PDBTitle: crystal structure of the phnh protein from escherichia coli 2 d2fsua1 100.0 95 Fold:PLP-dependent transferase-like Superfamily:PhnH-like Family:PhnH-like 3 d1i4aa_ 47.6 24 Fold:Annexin Superfamily:Annexin Family:Annexin 4 c1w3wA_ 25.6 24 PDB header:coagulation Chain: A: PDB Molecule:annexin a8; PDBTitle: the 2.1 angstroem resolution structure of annexin a8 5 c3s9xA_ 24.7 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asch domain; PDBTitle: high resolution crystal structure of asch domain from lactobacillus2 crispatus jv v101 6 d1t62a_ 23.5 48 Fold:PUA domain-like Superfamily:PUA domain-like Family:Hypothetical protein EF3133 7 d1qjwa_ 22.3 19 Fold:7-stranded beta/alpha barrel Superfamily:Glycosyl hydrolases family 6, cellulases Family:Glycosyl hydrolases family 6, cellulases 8 d2c7fa1 21.4 9 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:Composite domain of glycosyl hydrolase families 5, 30, 39 and 51 9 c3fdfA_ 19.4 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:fr253; PDBTitle: crystal structure of the serine phosphatase of rna2 polymerase ii ctd (ssu72 superfamily) from drosophila3 melanogaster. orthorhombic crystal form. northeast4 structural genomics consortium target fr253. 10 d1dd1a_ 18.7 11 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:SMAD domain 11 c3o2qB_ 18.7 17 PDB header:hydrolase Chain: B: PDB Molecule:rna polymerase ii subunit a c-terminal domain phosphatase PDBTitle: crystal structure of the human symplekin-ssu72-ctd phosphopeptide2 complex 12 d1ygsa_ 14.9 11 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:SMAD domain 13 d1hm6a_ 14.4 15 Fold:Annexin Superfamily:Annexin Family:Annexin 14 c3o2sB_ 14.2 17 PDB header:hydrolase Chain: B: PDB Molecule:rna polymerase ii subunit a c-terminal domain phosphatase PDBTitle: crystal structure of the human symplekin-ssu72 complex 15 d1hvda_ 12.7 20 Fold:Annexin Superfamily:Annexin Family:Annexin 16 d1aina_ 12.0 18 Fold:Annexin Superfamily:Annexin Family:Annexin 17 d1avca1 11.4 25 Fold:Annexin Superfamily:Annexin Family:Annexin 18 d2nn6h3 11.3 29 Fold:Eukaryotic type KH-domain (KH-domain type I) Superfamily:Eukaryotic type KH-domain (KH-domain type I) Family:Eukaryotic type KH-domain (KH-domain type I) 19 d1m9ia1 10.9 25 Fold:Annexin Superfamily:Annexin Family:Annexin 20 c1avcA_ 10.7 31 PDB header:calcium/phospholipid-binding protein Chain: A: PDB Molecule:annexin vi; PDBTitle: bovine annexin vi (calcium-bound) 21 d1m9ia2 not modelled 10.5 20 Fold:Annexin Superfamily:Annexin Family:Annexin 22 c2hjhB_ not modelled 10.5 26 PDB header:hydrolase Chain: B: PDB Molecule:nad-dependent histone deacetylase sir2; PDBTitle: crystal structure of the sir2 deacetylase 23 d1axna_ not modelled 10.0 20 Fold:Annexin Superfamily:Annexin Family:Annexin 24 d2pofa1 not modelled 9.9 16 Fold:HIT-like Superfamily:HIT-like Family:CDH-like 25 c3c8oB_ not modelled 9.3 5 PDB header:hydrolase regulator Chain: B: PDB Molecule:regulator of ribonuclease activity a; PDBTitle: the crystal structure of rraa from pao1 26 d1alaa_ not modelled 8.3 20 Fold:Annexin Superfamily:Annexin Family:Annexin 27 d1avca2 not modelled 8.0 20 Fold:Annexin Superfamily:Annexin Family:Annexin 28 d1dm5a_ not modelled 7.2 15 Fold:Annexin Superfamily:Annexin Family:Annexin 29 d1khxa_ not modelled 6.9 17 Fold:SMAD/FHA domain Superfamily:SMAD/FHA domain Family:SMAD domain 30 c1khxA_ not modelled 6.9 17 PDB header:transcription Chain: A: PDB Molecule:smad2; PDBTitle: crystal structure of a phosphorylated smad2 31 c1q46A_ not modelled 6.1 10 PDB header:translation Chain: A: PDB Molecule:translation initiation factor 2 alpha subunit; PDBTitle: crystal structure of the eif2 alpha subunit from2 saccharomyces cerevisia 32 c2kl7A_ not modelled 6.0 44 PDB header:signaling protein, structural protein Chain: A: PDB Molecule:fibulin-4; PDBTitle: solution nmr structure of the egf-like 1 domain of human2 fibulin-4. northeast structural genomics target hr6275 33 d1w7ba_ not modelled 6.0 20 Fold:Annexin Superfamily:Annexin Family:Annexin 34 d2ie7a1 not modelled 5.8 20 Fold:Annexin Superfamily:Annexin Family:Annexin

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