Secondary structure and disorder prediction

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Sequence		M	E	K	E	Q	L	I	E	I	A	N	T	I	M	P	F	G	K	Y	K	G	R	R	L	I	D	L	P	E	E	Y	L	L	W	F	A	R	K	D	E	F	P	A	G	K	L	G	E	L	M	Q	I	T	L	L	I	K	T	E	G
Secondary structure
SS confidence
Disorder		?	?									?																												?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.
Sequence		L	T	Q	L	V	Q	P	L	K	R	P	L
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 3h92 chain A Region: 28 - 38 Aligned: 11 Modelled: 11 Confidence: 24.0% Identity: 55% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized atp-binding protein mjecl15; PDBTitle: the crystal structure of one domain of the protein with unknown2 function from methanocaldococcus jannaschii Phyre2 PDB 3pvd chain A Region: 27 - 45 Aligned: 18 Modelled: 19 Confidence: 22.4% Identity: 22% PDB header:viral protein Chain: A: PDB Molecule:capsid; PDBTitle: crystal structure of p domain dimer of norovirus va207 complexed with2 3'-sialyl-lewis x tetrasaccharide Phyre2 PDB 2zl5 chain A Region: 27 - 45 Aligned: 18 Modelled: 19 Confidence: 20.4% Identity: 39% PDB header:viral protein Chain: A: PDB Molecule:58 kd capsid protein; PDBTitle: atomic resolution structural characterization of2 recognition of histo-blood group antigen by norwalk virus Phyre2 PDB 3pm5 chain B Region: 10 - 31 Aligned: 22 Modelled: 22 Confidence: 20.1% Identity: 32% PDB header:oxidoreductase Chain: B: PDB Molecule:benzoyl-coa oxygenase component b; PDBTitle: crystal structure of boxb in mixed valent state with bound benzoyl-coa Phyre2 PDB 3lq6 chain A Region: 27 - 45 Aligned: 18 Modelled: 19 Confidence: 17.8% Identity: 39% PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structure of murine norovirus protruding (p) domain Phyre2 PDB 2obt chain A Region: 27 - 45 Aligned: 18 Modelled: 19 Confidence: 16.8% Identity: 28% PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structures of p domain of norovirus va387 in2 complex with blood group trisaccharides type b Phyre2 PDB 2vy2 chain A Region: 57 - 66 Aligned: 10 Modelled: 10 Confidence: 16.8% Identity: 40% PDB header:transcription Chain: A: PDB Molecule:protein leafy; PDBTitle: structure of leafy transcription factor from arabidopsis2 thaliana in complex with dna from ag-i promoter Phyre2 PDB 3g6i chain A Region: 16 - 22 Aligned: 7 Modelled: 7 Confidence: 13.8% Identity: 100% PDB header:unknown function Chain: A: PDB Molecule:putative outer membrane protein, part of carbohydrate PDBTitle: crystal structure of an outer membrane protein, part of a putative2 carbohydrate binding complex (bt_1022) from bacteroides3 thetaiotaomicron vpi-5482 at 1.93 a resolution Phyre2 PDB 1mqr chain A Region: 28 - 37 Aligned: 10 Modelled: 10 Confidence: 13.7% Identity: 50% PDB header:hydrolase Chain: A: PDB Molecule:alpha-d-glucuronidase; PDBTitle: the crystal structure of alpha-d-glucuronidase (e386q) from bacillus2 stearothermophilus t-6 Phyre2 PDB 1l8n chain A domain 1 Region: 28 - 37 Aligned: 10 Modelled: 10 Confidence: 13.6% Identity: 50% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: alpha-D-glucuronidase/Hyaluronidase catalytic domain Phyre2 PDB 3bjo chain A Region: 28 - 38 Aligned: 11 Modelled: 11 Confidence: 13.0% Identity: 45% PDB header:nucleotide binding protein Chain: A: PDB Molecule:uncharacterized atp-binding protein mj1010; PDBTitle: crystal structure of the c-terminal domain of a possible atp-binding2 protein from methanocaldococcus jannaschii dsm 2661 Phyre2 PDB 2hl2 chain A Region: 3 - 27 Aligned: 25 Modelled: 25 Confidence: 12.8% Identity: 40% PDB header:ligase Chain: A: PDB Molecule:threonyl-trna synthetase; PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase from pyrococcus abyssi in complex with an3 analog of seryladenylate Phyre2 PDB 2i5n chain H domain 2 Region: 19 - 37 Aligned: 19 Modelled: 19 Confidence: 9.0% Identity: 32% Fold: Single transmembrane helix Superfamily: Photosystem II reaction centre subunit H, transmembrane region Family: Photosystem II reaction centre subunit H, transmembrane region Phyre2 PDB 1w36 chain C domain 3 Region: 28 - 71 Aligned: 44 Modelled: 44 Confidence: 8.9% Identity: 23% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: Exodeoxyribonuclease V beta chain (RecC), C-terminal domain Phyre2 PDB 3cjr chain B domain 1 Region: 1 - 15 Aligned: 15 Modelled: 15 Confidence: 8.0% Identity: 47% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Ribosomal protein L11, C-terminal domain Family: Ribosomal protein L11, C-terminal domain Phyre2 PDB 1h41 chain A domain 1 Region: 28 - 37 Aligned: 10 Modelled: 10 Confidence: 7.6% Identity: 50% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: alpha-D-glucuronidase/Hyaluronidase catalytic domain Phyre2 PDB 1gqk chain B Region: 28 - 37 Aligned: 10 Modelled: 10 Confidence: 7.3% Identity: 50% PDB header:hydrolase Chain: B: PDB Molecule:alpha-d-glucuronidase; PDBTitle: structure of pseudomonas cellulosa alpha-d-glucuronidase2 complexed with glucuronic acid Phyre2 PDB 3q38 chain A Region: 27 - 43 Aligned: 16 Modelled: 17 Confidence: 7.2% Identity: 19% PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structure of p domain from norwalk virus strain vietnam 026 in2 complex with hbga type b (triglycan) Phyre2 PDB 1zto chain A Region: 10 - 17 Aligned: 8 Modelled: 8 Confidence: 6.5% Identity: 50% PDB header:potassium channel Chain: A: PDB Molecule:potassium channel protein rck4; PDBTitle: inactivation gate of potassium channel rck4, nmr, 82 structures Phyre2 PDB 2yzj chain B Region: 17 - 25 Aligned: 9 Modelled: 9 Confidence: 5.7% Identity: 67% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:167aa long hypothetical dutpase; PDBTitle: crystal structure of dctp deaminase from sulfolobus tokodaii Phyre2 1 c3h92A_ 2 c3pvdA_ 3 c2zl5A_ 4 c3pm5B_ 5 c3lq6A_ 6 c2obtA_ 7 c2vy2A_ 8 c3g6iA_ 9 c1mqrA_ 10 d1l8na1 11 c3bjoA_ 12 c2hl2A_ 13 d2i5nh2 14 d1w36c3 15 d3cjrb1 16 d1h41a1 17 c1gqkB_ 18 c3q38A_ 19 c1ztoA_ 20 c2yzjB_ 21 22

Detailed template information

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

1 c3h92A_ 24.0 55 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized atp-binding protein mjecl15; PDBTitle: the crystal structure of one domain of the protein with unknown2 function from methanocaldococcus jannaschii 2 c3pvdA_ 22.4 22 PDB header:viral protein Chain: A: PDB Molecule:capsid; PDBTitle: crystal structure of p domain dimer of norovirus va207 complexed with2 3'-sialyl-lewis x tetrasaccharide 3 c2zl5A_ 20.4 39 PDB header:viral protein Chain: A: PDB Molecule:58 kd capsid protein; PDBTitle: atomic resolution structural characterization of2 recognition of histo-blood group antigen by norwalk virus 4 c3pm5B_ 20.1 32 PDB header:oxidoreductase Chain: B: PDB Molecule:benzoyl-coa oxygenase component b; PDBTitle: crystal structure of boxb in mixed valent state with bound benzoyl-coa 5 c3lq6A_ 17.8 39 PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structure of murine norovirus protruding (p) domain 6 c2obtA_ 16.8 28 PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structures of p domain of norovirus va387 in2 complex with blood group trisaccharides type b 7 c2vy2A_ 16.8 40 PDB header:transcription Chain: A: PDB Molecule:protein leafy; PDBTitle: structure of leafy transcription factor from arabidopsis2 thaliana in complex with dna from ag-i promoter 8 c3g6iA_ 13.8 100 PDB header:unknown function Chain: A: PDB Molecule:putative outer membrane protein, part of carbohydrate PDBTitle: crystal structure of an outer membrane protein, part of a putative2 carbohydrate binding complex (bt_1022) from bacteroides3 thetaiotaomicron vpi-5482 at 1.93 a resolution 9 c1mqrA_ 13.7 50 PDB header:hydrolase Chain: A: PDB Molecule:alpha-d-glucuronidase; PDBTitle: the crystal structure of alpha-d-glucuronidase (e386q) from bacillus2 stearothermophilus t-6 10 d1l8na1 13.6 50 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain 11 c3bjoA_ 13.0 45 PDB header:nucleotide binding protein Chain: A: PDB Molecule:uncharacterized atp-binding protein mj1010; PDBTitle: crystal structure of the c-terminal domain of a possible atp-binding2 protein from methanocaldococcus jannaschii dsm 2661 12 c2hl2A_ 12.8 40 PDB header:ligase Chain: A: PDB Molecule:threonyl-trna synthetase; PDBTitle: crystal structure of the editing domain of threonyl-trna2 synthetase from pyrococcus abyssi in complex with an3 analog of seryladenylate 13 d2i5nh2 9.0 32 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 14 d1w36c3 8.9 23 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Exodeoxyribonuclease V beta chain (RecC), C-terminal domain 15 d3cjrb1 8.0 47 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Ribosomal protein L11, C-terminal domain Family:Ribosomal protein L11, C-terminal domain 16 d1h41a1 7.6 50 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:alpha-D-glucuronidase/Hyaluronidase catalytic domain 17 c1gqkB_ 7.3 50 PDB header:hydrolase Chain: B: PDB Molecule:alpha-d-glucuronidase; PDBTitle: structure of pseudomonas cellulosa alpha-d-glucuronidase2 complexed with glucuronic acid 18 c3q38A_ 7.2 19 PDB header:viral protein Chain: A: PDB Molecule:capsid protein; PDBTitle: crystal structure of p domain from norwalk virus strain vietnam 026 in2 complex with hbga type b (triglycan) 19 c1ztoA_ 6.5 50 PDB header:potassium channel Chain: A: PDB Molecule:potassium channel protein rck4; PDBTitle: inactivation gate of potassium channel rck4, nmr, 82 structures 20 c2yzjB_ 5.7 67 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:167aa long hypothetical dutpase; PDBTitle: crystal structure of dctp deaminase from sulfolobus tokodaii 21 c3cu2A_ not modelled 5.3 9 PDB header:isomerase Chain: A: PDB Molecule:ribulose-5-phosphate 3-epimerase; PDBTitle: crystal structure of ribulose-5-phosphate 3-epimerase (yp_718263.1)2 from haemophilus somnus 129pt at 1.91 a resolution 22 c3rmsA_ not modelled 5.3 18 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of uncharacterized protein svir_20580 from2 saccharomonospora viridis

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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