Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	F	H	L	D	T	L	A	T	L	V	A	A	T	L	T	L	L	L	G	R	K	L	V	H	S	V	S	F	L	K	K	Y	T	I	P	E	P	V	A	G	G	L	L	V	A	L	A	L	L	V	L	K	K	S	M	G	W	E	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		N	F	D	M	S	L	R	D	P	L	M	L	A	F	F	A	T	I	G	L	N	A	N	I	A	S	L	R	A	G	G	R	V	V	G	I	F	L	I	V	V	V	G	L	L	V	M	Q	N	A	I	G	I	G	M	A	S	L	L	G
Secondary structure
SS confidence
Disorder																				?	?	?	?	?	?			?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	D	P	L	M	G	L	L	A	G	S	I	T	L	S	G	G	H	G	T	G	A	A	W	S	K	L	F	I	E	R	Y	G	F	T	N	A	T	E	V	A	M	A	C	A	T	F	G	L	V	L	G	G	L	I	G	G	P	V	A
Secondary structure
SS confidence
Disorder															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		R	Y	L	V	K	H	S	T	T	P	N	G	I	P	D	D	Q	E	V	P	T	A	F	E	K	P	D	V	G	R	M	I	T	S	L	V	L	I	E	T	I	A	L	I	A	I	C	L	T	V	G	K	I	V	A	Q	L	L	A	G
Secondary structure
SS confidence
Disorder									?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		T	A	F	E	L	P	T	F	V	C	V	L	F	V	G	V	I	L	S	N	G	L	S	I	M	G	F	Y	R	V	F	E	R	A	V	S	V	L	G	N	V	S	L	S	L	F	L	A	M	A	L	M	G	L	K	L	W	E	L	A
Secondary structure
SS confidence
Disorder																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		S	L	A	L	P	M	L	A	I	L	V	V	Q	T	I	F	M	A	L	Y	A	I	F	V	T	W	R	M	M	G	K	N	Y	D	A	A	V	L	A	A	G	H	C	G	F	G	L	G	A	T	P	T	A	I	A	N	M	Q	A	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.
Sequence		T	E	R	F	G	P	S	H	M	A	F	L	V	V	P	M	V	G	A	F	F	I	D	I	V	N	A	L	V	I	K	L	Y	L	M	L	P	I	F	A	G
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 2nww chain A domain 1 Region: 39 - 376 Aligned: 256 Modelled: 256 Confidence: 93.7% Identity: 17% Fold: Proton glutamate symport protein Superfamily: Proton glutamate symport protein Family: Proton glutamate symport protein Phyre2 PDB 1zcd chain A Region: 11 - 175 Aligned: 157 Modelled: 165 Confidence: 28.7% Identity: 12% PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa Phyre2 PDB 1e9y chain B domain 2 Region: 335 - 365 Aligned: 30 Modelled: 31 Confidence: 24.9% Identity: 33% Fold: TIM beta/alpha-barrel Superfamily: Metallo-dependent hydrolases Family: alpha-subunit of urease, catalytic domain Phyre2 PDB 1ejx chain C domain 2 Region: 334 - 365 Aligned: 30 Modelled: 32 Confidence: 23.4% Identity: 37% Fold: TIM beta/alpha-barrel Superfamily: Metallo-dependent hydrolases Family: alpha-subunit of urease, catalytic domain Phyre2 PDB 3b9y chain A Region: 138 - 211 Aligned: 73 Modelled: 74 Confidence: 18.2% Identity: 14% PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein Phyre2 PDB 3chx chain F Region: 11 - 52 Aligned: 42 Modelled: 42 Confidence: 8.7% Identity: 19% PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) Phyre2 PDB 3bl2 chain A domain 1 Region: 364 - 395 Aligned: 32 Modelled: 32 Confidence: 8.4% Identity: 19% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1yew chain F Region: 11 - 52 Aligned: 42 Modelled: 42 Confidence: 7.9% Identity: 24% PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase Phyre2 PDB 2fna chain A domain 1 Region: 31 - 41 Aligned: 11 Modelled: 11 Confidence: 7.2% Identity: 36% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Helicase DNA-binding domain Phyre2 PDB 3gd8 chain A Region: 19 - 125 Aligned: 107 Modelled: 107 Confidence: 7.1% Identity: 19% PDB header:membrane protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: crystal structure of human aquaporin 4 at 1.8 and its mechanism of2 conductance Phyre2 PDB 2pv7 chain A domain 2 Region: 166 - 209 Aligned: 44 Modelled: 44 Confidence: 6.9% Identity: 20% Fold: NAD(P)-binding Rossmann-fold domains Superfamily: NAD(P)-binding Rossmann-fold domains Family: 6-phosphogluconate dehydrogenase-like, N-terminal domain Phyre2 PDB 3cpi chain H Region: 329 - 349 Aligned: 21 Modelled: 21 Confidence: 6.9% Identity: 29% PDB header:protein transport Chain: H: PDB Molecule:rab gdp-dissociation inhibitor; PDBTitle: crystal structure of yeast rab-gdi Phyre2 PDB 1ivy chain A Region: 134 - 153 Aligned: 18 Modelled: 20 Confidence: 6.4% Identity: 39% Fold: alpha/beta-Hydrolases Superfamily: alpha/beta-Hydrolases Family: Serine carboxypeptidase-like Phyre2 PDB 3czc chain A Region: 343 - 365 Aligned: 23 Modelled: 23 Confidence: 6.1% Identity: 22% PDB header:transferase Chain: A: PDB Molecule:rmpb; PDBTitle: the crystal structure of a putative pts iib(ptxb) from2 streptococcus mutans Phyre2 PDB 2d57 chain A Region: 19 - 112 Aligned: 94 Modelled: 94 Confidence: 6.1% Identity: 19% PDB header:transport protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: double layered 2d crystal structure of aquaporin-4 (aqp4m23) at 3.2 a2 resolution by electron crystallography Phyre2 PDB 3hd6 chain A Region: 138 - 211 Aligned: 74 Modelled: 74 Confidence: 5.9% Identity: 12% PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg Phyre2 PDB 1ohe chain A domain 2 Region: 342 - 370 Aligned: 27 Modelled: 29 Confidence: 5.5% Identity: 33% Fold: (Phosphotyrosine protein) phosphatases II Superfamily: (Phosphotyrosine protein) phosphatases II Family: Dual specificity phosphatase-like Phyre2 PDB 3pdu chain F Region: 166 - 220 Aligned: 55 Modelled: 55 Confidence: 5.3% Identity: 16% PDB header:oxidoreductase Chain: F: PDB Molecule:3-hydroxyisobutyrate dehydrogenase family protein; PDBTitle: crystal structure of gamma-hydroxybutyrate dehydrogenase from2 geobacter sulfurreducens in complex with nadp+ Phyre2 1 d2nwwa1 2 c1zcdA_ 3 d1e9yb2 4 d1ejxc2 5 c3b9yA_ 6 c3chxF_ 7 d3bl2a1 8 c1yewF_ 9 d2fnaa1 10 c3gd8A_ 11 d2pv7a2 12 c3cpiH_ 13 d1ivya_ 14 c3czcA_ 15 c2d57A_ 16 c3hd6A_ 17 d1ohea2 18 c3pduF_

Detailed template information

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

1 d2nwwa1 93.7 17 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein 2 c1zcdA_ 28.7 12 PDB header:membrane protein Chain: A: PDB Molecule:na(+)/h(+) antiporter 1; PDBTitle: crystal structure of the na+/h+ antiporter nhaa 3 d1e9yb2 24.9 33 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:alpha-subunit of urease, catalytic domain 4 d1ejxc2 23.4 37 Fold:TIM beta/alpha-barrel Superfamily:Metallo-dependent hydrolases Family:alpha-subunit of urease, catalytic domain 5 c3b9yA_ 18.2 14 PDB header:transport protein Chain: A: PDB Molecule:ammonium transporter family rh-like protein; PDBTitle: crystal structure of the nitrosomonas europaea rh protein 6 c3chxF_ 8.7 19 PDB header:membrane protein Chain: F: PDB Molecule:pmoa; PDBTitle: crystal structure of methylosinus trichosporium ob3b2 particulate methane monooxygenase (pmmo) 7 d3bl2a1 8.4 19 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 8 c1yewF_ 7.9 24 PDB header:oxidoreductase, membrane protein Chain: F: PDB Molecule:particulate methane monooxygenase, a subunit; PDBTitle: crystal structure of particulate methane monooxygenase 9 d2fnaa1 7.2 36 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Helicase DNA-binding domain 10 c3gd8A_ 7.1 19 PDB header:membrane protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: crystal structure of human aquaporin 4 at 1.8 and its mechanism of2 conductance 11 d2pv7a2 6.9 20 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:6-phosphogluconate dehydrogenase-like, N-terminal domain 12 c3cpiH_ 6.9 29 PDB header:protein transport Chain: H: PDB Molecule:rab gdp-dissociation inhibitor; PDBTitle: crystal structure of yeast rab-gdi 13 d1ivya_ 6.4 39 Fold:alpha/beta-Hydrolases Superfamily:alpha/beta-Hydrolases Family:Serine carboxypeptidase-like 14 c3czcA_ 6.1 22 PDB header:transferase Chain: A: PDB Molecule:rmpb; PDBTitle: the crystal structure of a putative pts iib(ptxb) from2 streptococcus mutans 15 c2d57A_ 6.1 19 PDB header:transport protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: double layered 2d crystal structure of aquaporin-4 (aqp4m23) at 3.2 a2 resolution by electron crystallography 16 c3hd6A_ 5.9 12 PDB header:membrane protein, transport protein Chain: A: PDB Molecule:ammonium transporter rh type c; PDBTitle: crystal structure of the human rhesus glycoprotein rhcg 17 d1ohea2 5.5 33 Fold:(Phosphotyrosine protein) phosphatases II Superfamily:(Phosphotyrosine protein) phosphatases II Family:Dual specificity phosphatase-like 18 c3pduF_ 5.3 16 PDB header:oxidoreductase Chain: F: PDB Molecule:3-hydroxyisobutyrate dehydrogenase family protein; PDBTitle: crystal structure of gamma-hydroxybutyrate dehydrogenase from2 geobacter sulfurreducens in complex with nadp+

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