Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	N	D	K	I	D	Q	H	S	D	E	I	E	V	E	S	E	E	K	E	R	G	K	K	I	E	I	D	E	D	R	L	P	S	R	A	M	A	I	H	E	H	I	R	Q	D	G	E	K	E	L	E	R	D	A	M	A	L	L
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		W	S	A	I	A	A	G	L	S	M	G	A	S	L	L	A	K	G	I	F	Q	V	E	L	E	G	V	P	G	S	F	L	L	E	N	L	G	Y	T	F	G	F	I	I	V	I	M	A	R	Q	Q	L	F	T	E	N	T	V	T	A
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		V	L	P	V	M	Q	K	P	T	M	S	N	V	G	L	L	I	R	L	W	G	V	V	L	L	G	N	I	L	G	T	G	I	A	A	W	A	F	E	Y	M	P	I	F	N	E	E	T	R	D	A	F	V	K	I	G	M	D	V	M
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		K	N	T	P	S	E	M	F	A	N	A	I	I	S	G	W	L	I	A	T	M	V	W	M	F	P	A	A	G	A	A	K	I	V	V	I	I	L	M	T	W	L	I	A	L	G	D	T	T	H	I	V	V	G	S	V	E	I	L	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	V	F	N	G	T	L	H	W	S	D	F	I	W	P	F	A	L	P	T	L	A	G	N	I	C	G	G	T	F	I	F	A	L	M	S	H	A	Q	I	R	N	D	M	S	N	K	R	K	A	E	A	R	Q	K	A	E	R	A	E
Secondary structure
SS confidence
Disorder																																													?	?					?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310
Sequence		N	I	K	K	N	Y	K	N	P	A
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 3klz chain E Region: 49 - 282 Aligned: 231 Modelled: 234 Confidence: 100.0% Identity: 23% PDB header:membrane protein Chain: E: PDB Molecule:putative formate transporter 1; PDBTitle: pentameric formate channel with formate bound Phyre2 PDB 3kcv chain G Region: 54 - 282 Aligned: 226 Modelled: 229 Confidence: 100.0% Identity: 18% PDB header:transport protein Chain: G: PDB Molecule:probable formate transporter 1; PDBTitle: structure of formate channel Phyre2 PDB 3llq chain B Region: 55 - 271 Aligned: 215 Modelled: 217 Confidence: 85.2% Identity: 9% PDB header:membrane protein Chain: B: PDB Molecule:aquaporin z 2; PDBTitle: aquaporin structure from plant pathogen agrobacterium tumerfaciens Phyre2 PDB 3c02 chain A Region: 55 - 286 Aligned: 225 Modelled: 232 Confidence: 83.5% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:aquaglyceroporin; PDBTitle: x-ray structure of the aquaglyceroporin from plasmodium falciparum Phyre2 PDB 1ymg chain A Region: 54 - 295 Aligned: 220 Modelled: 240 Confidence: 74.1% Identity: 10% PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution Phyre2 PDB 1ymg chain A domain 1 Region: 54 - 295 Aligned: 220 Modelled: 240 Confidence: 74.1% Identity: 10% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 1lda chain A Region: 55 - 284 Aligned: 217 Modelled: 230 Confidence: 74.0% Identity: 11% PDB header:transport protein Chain: A: PDB Molecule:glycerol uptake facilitator protein; PDBTitle: crystal structure of the e. coli glycerol facilitator (glpf) without2 substrate glycerol Phyre2 PDB 1fx8 chain A Region: 55 - 284 Aligned: 217 Modelled: 230 Confidence: 74.0% Identity: 11% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 2knc chain A Region: 258 - 299 Aligned: 42 Modelled: 42 Confidence: 58.8% Identity: 12% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 2w2e chain A Region: 53 - 283 Aligned: 213 Modelled: 231 Confidence: 58.8% Identity: 13% PDB header:membrane protein Chain: A: PDB Molecule:aquaporin; PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5 Phyre2 PDB 1rc2 chain A Region: 57 - 285 Aligned: 221 Modelled: 229 Confidence: 45.2% Identity: 7% Fold: Aquaporin-like Superfamily: Aquaporin-like Family: Aquaporin-like Phyre2 PDB 2knc chain B Region: 258 - 302 Aligned: 45 Modelled: 45 Confidence: 45.0% Identity: 24% PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 3qnq chain D Region: 269 - 300 Aligned: 32 Modelled: 32 Confidence: 38.7% Identity: 16% PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system Phyre2 PDB 2b5f chain D Region: 53 - 271 Aligned: 211 Modelled: 219 Confidence: 37.4% Identity: 12% PDB header:transport protein,membrane protein Chain: D: PDB Molecule:aquaporin; PDBTitle: crystal structure of the spinach aquaporin sopip2;1 in an2 open conformation to 3.9 resolution Phyre2 PDB 1c17 chain M Region: 261 - 278 Aligned: 18 Modelled: 18 Confidence: 24.6% Identity: 39% Fold: F1F0 ATP synthase subunit A Superfamily: F1F0 ATP synthase subunit A Family: F1F0 ATP synthase subunit A Phyre2 PDB 3iyz chain A Region: 53 - 271 Aligned: 204 Modelled: 219 Confidence: 19.1% Identity: 12% PDB header:transport protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: structure of aquaporin-4 s180d mutant at 10.0 a resolution from2 electron micrograph Phyre2 PDB 3d9s chain B Region: 50 - 292 Aligned: 226 Modelled: 243 Confidence: 12.1% Identity: 11% PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure Phyre2 PDB 3s0x chain B Region: 67 - 212 Aligned: 125 Modelled: 123 Confidence: 11.8% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:peptidase a24b, flak domain protein; PDBTitle: the crystal structure of gxgd membrane protease flak Phyre2 PDB 2jy0 chain A Region: 267 - 275 Aligned: 9 Modelled: 9 Confidence: 10.5% Identity: 33% PDB header:membrane protein, viral protein Chain: A: PDB Molecule:protease ns2-3; PDBTitle: solution nmr structure of hcv ns2 protein, membrane segment2 (1-27) Phyre2 PDB 2h3o chain A Region: 249 - 286 Aligned: 31 Modelled: 38 Confidence: 9.6% Identity: 19% PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices Phyre2 1 c3klzE_ 2 c3kcvG_ 3 c3llqB_ 4 c3c02A_ 5 c1ymgA_ 6 d1ymga1 7 c1ldaA_ 8 d1fx8a_ 9 c2kncA_ 10 c2w2eA_ 11 d1rc2a_ 12 c2kncB_ 13 c3qnqD_ 14 c2b5fD_ 15 d1c17m_ 16 c3iyzA_ 17 c3d9sB_ 18 c3s0xB_ 19 c2jy0A_ 20 c2h3oA_ 21 22 23 24 25 26 27 28 29 30 31

Detailed template information

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

1 c3klzE_ 100.0 23 PDB header:membrane protein Chain: E: PDB Molecule:putative formate transporter 1; PDBTitle: pentameric formate channel with formate bound 2 c3kcvG_ 100.0 18 PDB header:transport protein Chain: G: PDB Molecule:probable formate transporter 1; PDBTitle: structure of formate channel 3 c3llqB_ 85.2 9 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin z 2; PDBTitle: aquaporin structure from plant pathogen agrobacterium tumerfaciens 4 c3c02A_ 83.5 14 PDB header:membrane protein Chain: A: PDB Molecule:aquaglyceroporin; PDBTitle: x-ray structure of the aquaglyceroporin from plasmodium falciparum 5 c1ymgA_ 74.1 10 PDB header:membrane protein Chain: A: PDB Molecule:lens fiber major intrinsic protein; PDBTitle: the channel architecture of aquaporin o at 2.2 angstrom resolution 6 d1ymga1 74.1 10 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 7 c1ldaA_ 74.0 11 PDB header:transport protein Chain: A: PDB Molecule:glycerol uptake facilitator protein; PDBTitle: crystal structure of the e. coli glycerol facilitator (glpf) without2 substrate glycerol 8 d1fx8a_ 74.0 11 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 9 c2kncA_ 58.8 12 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 10 c2w2eA_ 58.8 13 PDB header:membrane protein Chain: A: PDB Molecule:aquaporin; PDBTitle: 1.15 angstrom crystal structure of p.pastoris aquaporin,2 aqy1, in a closed conformation at ph 3.5 11 d1rc2a_ 45.2 7 Fold:Aquaporin-like Superfamily:Aquaporin-like Family:Aquaporin-like 12 c2kncB_ 45.0 24 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 13 c3qnqD_ 38.7 16 PDB header:membrane protein, transport protein Chain: D: PDB Molecule:pts system, cellobiose-specific iic component; PDBTitle: crystal structure of the transporter chbc, the iic component from the2 n,n'-diacetylchitobiose-specific phosphotransferase system 14 c2b5fD_ 37.4 12 PDB header:transport protein,membrane protein Chain: D: PDB Molecule:aquaporin; PDBTitle: crystal structure of the spinach aquaporin sopip2;1 in an2 open conformation to 3.9 resolution 15 d1c17m_ 24.6 39 Fold:F1F0 ATP synthase subunit A Superfamily:F1F0 ATP synthase subunit A Family:F1F0 ATP synthase subunit A 16 c3iyzA_ 19.1 12 PDB header:transport protein Chain: A: PDB Molecule:aquaporin-4; PDBTitle: structure of aquaporin-4 s180d mutant at 10.0 a resolution from2 electron micrograph 17 c3d9sB_ 12.1 11 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure 18 c3s0xB_ 11.8 14 PDB header:hydrolase Chain: B: PDB Molecule:peptidase a24b, flak domain protein; PDBTitle: the crystal structure of gxgd membrane protease flak 19 c2jy0A_ 10.5 33 PDB header:membrane protein, viral protein Chain: A: PDB Molecule:protease ns2-3; PDBTitle: solution nmr structure of hcv ns2 protein, membrane segment2 (1-27) 20 c2h3oA_ 9.6 19 PDB header:membrane protein Chain: A: PDB Molecule:merf; PDBTitle: structure of merft, a membrane protein with two trans-2 membrane helices 21 d2c1wa1 not modelled 7.4 33 Fold:EndoU-like Superfamily:EndoU-like Family:Eukaryotic EndoU ribonuclease 22 c2q7cC_ not modelled 7.2 29 PDB header:viral protein Chain: C: PDB Molecule:fusion protein between yeast variant gcn4 and PDBTitle: crystal structure of iqn17 23 c2ywxA_ not modelled 6.9 13 PDB header:lyase Chain: A: PDB Molecule:phosphoribosylaminoimidazole carboxylase catalytic subunit; PDBTitle: crystal structure of phosphoribosylaminoimidazole carboxylase2 catalytic subunit from methanocaldococcus jannaschii 24 c2voyG_ not modelled 6.2 39 PDB header:hydrolase Chain: G: PDB Molecule:sarcoplasmic/endoplasmic reticulum calcium PDBTitle: cryoem model of copa, the copper transporting atpase from2 archaeoglobus fulgidus 25 d1wpna_ not modelled 6.0 19 Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Manganese-dependent inorganic pyrophosphatase (family II) 26 d2hawa1 not modelled 6.0 19 Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Manganese-dependent inorganic pyrophosphatase (family II) 27 d1k20a_ not modelled 5.7 9 Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Manganese-dependent inorganic pyrophosphatase (family II) 28 d1qkla_ not modelled 5.6 19 Fold:RPB6/omega subunit-like Superfamily:RPB6/omega subunit-like Family:RPB6 29 d2foka2 not modelled 5.5 40 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Restriction endonuclease FokI, N-terminal (recognition) domain 30 d1i74a_ not modelled 5.4 9 Fold:DHH phosphoesterases Superfamily:DHH phosphoesterases Family:Manganese-dependent inorganic pyrophosphatase (family II) 31 c1q90L_ not modelled 5.0 11 PDB header:photosynthesis Chain: L: PDB Molecule:cytochrome b6f complex subunit petl; PDBTitle: structure of the cytochrome b6f (plastohydroquinone : plastocyanin2 oxidoreductase) from chlamydomonas reinhardtii

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