Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	E	Y	R	R	Y	Y	I	K	G	G	T	W	F	F	T	V	N	L	R	N	R	R	S	Q	L	L	T	T	Q	Y	Q	M	L	R	H	A	I	I	K	V	K	R	D	R	P	F	E	I	N	A	W	V	V	L	P	E	H	M
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	C	I	W	T	L	P	E	G	D	D	D	F	S	S	R	W	R	E	I	K	K	Q	F	T	H	A	C	G	L	K	N	I	W	Q	P	R	F	W	E	H	A	I	R	N	T	K	D	Y	R	H	H	V	D	Y	I	Y	I	N	P
Secondary structure
SS confidence
Disorder																																		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.
Sequence		V	K	H	G	W	V	K	Q	V	S	D	W	P	F	S	T	F	H	R	D	V	A	R	G	L	Y	P	I	D	W	A	G	D	V	T	D	F	S	A	G	E	R	I	I	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 2f5g chain A domain 1 Region: 3 - 124 Aligned: 120 Modelled: 122 Confidence: 99.9% Identity: 18% Fold: Ferredoxin-like Superfamily: Transposase IS200-like Family: Transposase IS200-like Phyre2 PDB 2fyx chain A domain 1 Region: 3 - 118 Aligned: 114 Modelled: 116 Confidence: 99.9% Identity: 15% Fold: Ferredoxin-like Superfamily: Transposase IS200-like Family: Transposase IS200-like Phyre2 PDB 2vhg chain B Region: 1 - 118 Aligned: 116 Modelled: 118 Confidence: 99.9% Identity: 14% PDB header:dna-binding protein Chain: B: PDB Molecule:transposase orfa; PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna Phyre2 PDB 2vjv chain A domain 1 Region: 1 - 118 Aligned: 116 Modelled: 118 Confidence: 99.9% Identity: 14% Fold: Ferredoxin-like Superfamily: Transposase IS200-like Family: Transposase IS200-like Phyre2 PDB 1nzy chain A Region: 1 - 60 Aligned: 60 Modelled: 60 Confidence: 19.2% Identity: 17% Fold: ClpP/crotonase Superfamily: ClpP/crotonase Family: Crotonase-like Phyre2 PDB 2ej5 chain B Region: 1 - 60 Aligned: 60 Modelled: 60 Confidence: 18.3% Identity: 17% PDB header:lyase Chain: B: PDB Molecule:enoyl-coa hydratase subunit ii; PDBTitle: crystal structure of gk2038 protein (enoyl-coa hydratase subunit ii)2 from geobacillus kaustophilus Phyre2 PDB 1qgv chain A Region: 103 - 132 Aligned: 30 Modelled: 30 Confidence: 17.3% Identity: 17% Fold: Thioredoxin fold Superfamily: Thioredoxin-like Family: spliceosomal protein U5-15Kd Phyre2 PDB 2hld chain H Region: 52 - 69 Aligned: 18 Modelled: 18 Confidence: 15.6% Identity: 28% PDB header:hydrolase Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial; PDBTitle: crystal structure of yeast mitochondrial f1-atpase Phyre2 PDB 2vx2 chain D Region: 2 - 60 Aligned: 59 Modelled: 59 Confidence: 13.7% Identity: 8% PDB header:isomerase Chain: D: PDB Molecule:enoyl-coa hydratase domain-containing protein 3; PDBTitle: crystal structure of human enoyl coenzyme a hydratase2 domain-containing protein 3 (echdc3) Phyre2 PDB 2al3 chain A domain 1 Region: 16 - 56 Aligned: 41 Modelled: 41 Confidence: 13.4% Identity: 15% Fold: beta-Grasp (ubiquitin-like) Superfamily: Ubiquitin-like Family: UBX domain Phyre2 PDB 2rq7 chain A Region: 53 - 69 Aligned: 17 Modelled: 17 Confidence: 12.9% Identity: 24% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1 Phyre2 PDB 1fs0 chain E Region: 52 - 69 Aligned: 18 Modelled: 18 Confidence: 11.8% Identity: 17% PDB header:hydrolase Chain: E: PDB Molecule:atp synthase epsilon subunit; PDBTitle: complex of gamma/epsilon atp synthase from e.coli Phyre2 PDB 1y0u chain A Region: 107 - 131 Aligned: 25 Modelled: 25 Confidence: 11.5% Identity: 20% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: ArsR-like transcriptional regulators Phyre2 PDB 3eug chain A Region: 134 - 158 Aligned: 25 Modelled: 25 Confidence: 9.7% Identity: 28% Fold: Uracil-DNA glycosylase-like Superfamily: Uracil-DNA glycosylase-like Family: Uracil-DNA glycosylase Phyre2 PDB 3i0u chain A Region: 109 - 138 Aligned: 30 Modelled: 30 Confidence: 9.5% Identity: 13% PDB header:lyase Chain: A: PDB Molecule:phosphothreonine lyase ospf; PDBTitle: structure of the type iii effector/phosphothreonine lyase ospf from2 shigella flexneri Phyre2 PDB 2x3g chain A Region: 12 - 76 Aligned: 63 Modelled: 65 Confidence: 9.4% Identity: 14% PDB header:viral protein Chain: A: PDB Molecule:sirv1 hypothetical protein orf119; PDBTitle: crystal structure of the hypothetical protein orf119 from2 sulfolobus islandicus rod-shaped virus 1 Phyre2 PDB 1nvm chain A domain 1 Region: 134 - 149 Aligned: 16 Modelled: 16 Confidence: 9.0% Identity: 31% Fold: RuvA C-terminal domain-like Superfamily: post-HMGL domain-like Family: DmpG/LeuA communication domain-like Phyre2 PDB 3tr7 chain A Region: 134 - 151 Aligned: 18 Modelled: 18 Confidence: 8.9% Identity: 39% PDB header:hydrolase Chain: A: PDB Molecule:uracil-dna glycosylase; PDBTitle: structure of a uracil-dna glycosylase (ung) from coxiella burnetii Phyre2 PDB 3trr chain A Region: 1 - 60 Aligned: 60 Modelled: 60 Confidence: 7.9% Identity: 12% PDB header:isomerase Chain: A: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus Phyre2 PDB 1aqt chain A domain 2 Region: 52 - 69 Aligned: 18 Modelled: 18 Confidence: 7.6% Identity: 17% Fold: Epsilon subunit of F1F0-ATP synthase N-terminal domain Superfamily: Epsilon subunit of F1F0-ATP synthase N-terminal domain Family: Epsilon subunit of F1F0-ATP synthase N-terminal domain Phyre2 1 d2f5ga1 2 d2fyxa1 3 c2vhgB_ 4 d2vjva1 5 d1nzya_ 6 c2ej5B_ 7 d1qgva_ 8 c2hldH_ 9 c2vx2D_ 10 d2al3a1 11 c2rq7A_ 12 c1fs0E_ 13 d1y0ua_ 14 d3euga_ 15 c3i0uA_ 16 c2x3gA_ 17 d1nvma1 18 c3tr7A_ 19 c3trrA_ 20 d1aqta2 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 d2f5ga1 99.9 18 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 2 d2fyxa1 99.9 15 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 3 c2vhgB_ 99.9 14 PDB header:dna-binding protein Chain: B: PDB Molecule:transposase orfa; PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna 4 d2vjva1 99.9 14 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 5 d1nzya_ 19.2 17 Fold:ClpP/crotonase Superfamily:ClpP/crotonase Family:Crotonase-like 6 c2ej5B_ 18.3 17 PDB header:lyase Chain: B: PDB Molecule:enoyl-coa hydratase subunit ii; PDBTitle: crystal structure of gk2038 protein (enoyl-coa hydratase subunit ii)2 from geobacillus kaustophilus 7 d1qgva_ 17.3 17 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:spliceosomal protein U5-15Kd 8 c2hldH_ 15.6 28 PDB header:hydrolase Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial; PDBTitle: crystal structure of yeast mitochondrial f1-atpase 9 c2vx2D_ 13.7 8 PDB header:isomerase Chain: D: PDB Molecule:enoyl-coa hydratase domain-containing protein 3; PDBTitle: crystal structure of human enoyl coenzyme a hydratase2 domain-containing protein 3 (echdc3) 10 d2al3a1 13.4 15 Fold:beta-Grasp (ubiquitin-like) Superfamily:Ubiquitin-like Family:UBX domain 11 c2rq7A_ 12.9 24 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1 12 c1fs0E_ 11.8 17 PDB header:hydrolase Chain: E: PDB Molecule:atp synthase epsilon subunit; PDBTitle: complex of gamma/epsilon atp synthase from e.coli 13 d1y0ua_ 11.5 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 14 d3euga_ 9.7 28 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Uracil-DNA glycosylase 15 c3i0uA_ 9.5 13 PDB header:lyase Chain: A: PDB Molecule:phosphothreonine lyase ospf; PDBTitle: structure of the type iii effector/phosphothreonine lyase ospf from2 shigella flexneri 16 c2x3gA_ 9.4 14 PDB header:viral protein Chain: A: PDB Molecule:sirv1 hypothetical protein orf119; PDBTitle: crystal structure of the hypothetical protein orf119 from2 sulfolobus islandicus rod-shaped virus 1 17 d1nvma1 9.0 31 Fold:RuvA C-terminal domain-like Superfamily:post-HMGL domain-like Family:DmpG/LeuA communication domain-like 18 c3tr7A_ 8.9 39 PDB header:hydrolase Chain: A: PDB Molecule:uracil-dna glycosylase; PDBTitle: structure of a uracil-dna glycosylase (ung) from coxiella burnetii 19 c3trrA_ 7.9 12 PDB header:isomerase Chain: A: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus 20 d1aqta2 7.6 17 Fold:Epsilon subunit of F1F0-ATP synthase N-terminal domain Superfamily:Epsilon subunit of F1F0-ATP synthase N-terminal domain Family:Epsilon subunit of F1F0-ATP synthase N-terminal domain 21 d1laue_ not modelled 7.4 37 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Uracil-DNA glycosylase 22 c2qe7H_ not modelled 7.2 17 PDB header:hydrolase Chain: H: PDB Molecule:atp synthase subunit epsilon; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1 23 c2owrD_ not modelled 6.9 20 PDB header:hydrolase Chain: D: PDB Molecule:uracil-dna glycosylase; PDBTitle: crystal structure of vaccinia virus uracil-dna glycosylase 24 c2e5yA_ not modelled 6.5 22 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: epsilon subunit and atp complex of f1f0-atp synthase from2 the thermophilic bacillus ps3 25 c3swxB_ not modelled 6.2 15 PDB header:isomerase Chain: B: PDB Molecule:probable enoyl-coa hydratase/isomerase; PDBTitle: crystal structure of a probable enoyl-coa hydratase/isomerase from2 mycobacterium abscessus 26 d2hxma1 not modelled 6.0 37 Fold:Uracil-DNA glycosylase-like Superfamily:Uracil-DNA glycosylase-like Family:Uracil-DNA glycosylase 27 d1ysja1 not modelled 5.7 7 Fold:Phosphorylase/hydrolase-like Superfamily:Zn-dependent exopeptidases Family:Bacterial dinuclear zinc exopeptidases 28 c1h8eH_ not modelled 5.6 28 PDB header:hydrolase Chain: H: PDB Molecule:bovine mitochondrial f1-atpase; PDBTitle: (adp.alf4)2(adp.so4) bovine f1-atpase2 (all three catalytic sites occupied) 29 d2aqaa1 not modelled 5.2 32 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-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