Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	K	T	T	L	L	F	F	A	T	A	L	C	E	I	I	G	C	F	L	P	W	L	W	L	K	R	N	A	S	I	W	L	L	L	P	A	G	I	S	L	A	L	F	V	W	L	L	T	L	H	P	A	A	S	G	R	V	Y
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.
Sequence		A	A	Y	G	G	V	Y	V	C	T	A	L	M	W	L	R	V	V	D	G	V	K	L	T	L	Y	D	W	T	G	A	L	I	A	L	C	G	M	L	I	I	V	A	G	W	G	R	T
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 1s7b chain A Region: 9 - 101 Aligned: 93 Modelled: 93 Confidence: 95.6% Identity: 25% Fold: Multidrug resistance efflux transporter EmrE Superfamily: Multidrug resistance efflux transporter EmrE Family: Multidrug resistance efflux transporter EmrE Phyre2 PDB 1pv7 chain A Region: 51 - 103 Aligned: 53 Modelled: 53 Confidence: 20.1% Identity: 13% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: LacY-like proton/sugar symporter Phyre2 PDB 1pw4 chain A Region: 51 - 103 Aligned: 53 Modelled: 53 Confidence: 16.1% Identity: 15% Fold: MFS general substrate transporter Superfamily: MFS general substrate transporter Family: Glycerol-3-phosphate transporter Phyre2 PDB 2xut chain C Region: 51 - 103 Aligned: 53 Modelled: 53 Confidence: 12.6% Identity: 15% PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. Phyre2 PDB 1w8x chain P Region: 21 - 28 Aligned: 8 Modelled: 8 Confidence: 10.3% Identity: 50% PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 Phyre2 PDB 3o7p chain A Region: 30 - 103 Aligned: 74 Modelled: 74 Confidence: 10.3% Identity: 18% PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) Phyre2 PDB 2ipq chain X domain 1 Region: 19 - 29 Aligned: 11 Modelled: 11 Confidence: 8.2% Identity: 36% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: STY4665 C-terminal domain-like Phyre2 PDB 3msq chain C Region: 48 - 63 Aligned: 16 Modelled: 16 Confidence: 7.3% Identity: 38% PDB header:biosynthetic protein Chain: C: PDB Molecule:putative ubiquinone biosynthesis protein; PDBTitle: crystal structure of a putative ubiquinone biosynthesis protein2 (npun02000094) from nostoc punctiforme pcc 73102 at 2.85 a resolution Phyre2 PDB 1b1y chain A Region: 78 - 90 Aligned: 13 Modelled: 13 Confidence: 6.6% Identity: 38% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 6rlx chain B Region: 76 - 99 Aligned: 24 Modelled: 24 Confidence: 6.5% Identity: 33% PDB header:hormone(muscle relaxant) Chain: B: PDB Molecule:relaxin, b-chain; PDBTitle: x-ray structure of human relaxin at 1.5 angstroms. comparison to2 insulin and implications for receptor binding determinants Phyre2 PDB 2kbv chain A Region: 62 - 81 Aligned: 20 Modelled: 20 Confidence: 6.1% Identity: 30% PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: structural and functional analysis of tm xi of the nhe12 isoform of the na+/h+ exchanger Phyre2 PDB 2gfp chain A Region: 51 - 103 Aligned: 53 Modelled: 53 Confidence: 6.1% Identity: 23% PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli Phyre2 PDB 3dve chain B Region: 55 - 62 Aligned: 8 Modelled: 8 Confidence: 5.9% Identity: 63% PDB header:membrane protein Chain: B: PDB Molecule:voltage-dependent n-type calcium channel subunit alpha-1b; PDBTitle: crystal structure of ca2+/cam-cav2.2 iq domain complex Phyre2 PDB 2xfy chain A Region: 74 - 90 Aligned: 17 Modelled: 17 Confidence: 5.7% Identity: 35% PDB header:hydrolase Chain: A: PDB Molecule:beta-amylase; PDBTitle: crystal structure of barley beta-amylase complexed with2 alpha-cyclodextrin Phyre2 PDB 1wdp chain A domain 1 Region: 74 - 90 Aligned: 17 Modelled: 17 Confidence: 5.7% Identity: 24% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 3kb4 chain D Region: 48 - 63 Aligned: 16 Modelled: 16 Confidence: 5.5% Identity: 31% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:alr8543 protein; PDBTitle: crystal structure of the alr8543 protein in complex with2 geranylgeranyl monophosphate and magnesium ion from nostoc sp. pcc3 7120, northeast structural genomics consortium target nsr141 Phyre2 PDB 1fa2 chain A Region: 74 - 90 Aligned: 17 Modelled: 17 Confidence: 5.1% Identity: 24% Fold: TIM beta/alpha-barrel Superfamily: (Trans)glycosidases Family: Amylase, catalytic domain Phyre2 PDB 2fno chain A domain 1 Region: 68 - 85 Aligned: 18 Modelled: 18 Confidence: 5.1% Identity: 28% Fold: GST C-terminal domain-like Superfamily: GST C-terminal domain-like Family: Glutathione S-transferase (GST), C-terminal domain Phyre2 1 d1s7ba_ 2 d1pv7a_ 3 d1pw4a_ 4 c2xutC_ 5 c1w8xP_ 6 c3o7pA_ 7 d2ipqx1 8 c3msqC_ 9 d1b1ya_ 10 c6rlxB_ 11 c2kbvA_ 12 c2gfpA_ 13 c3dveB_ 14 c2xfyA_ 15 d1wdpa1 16 c3kb4D_ 17 d1fa2a_ 18 d2fnoa1

Detailed template information

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

1 d1s7ba_ 95.6 25 Fold:Multidrug resistance efflux transporter EmrE Superfamily:Multidrug resistance efflux transporter EmrE Family:Multidrug resistance efflux transporter EmrE 2 d1pv7a_ 20.1 13 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:LacY-like proton/sugar symporter 3 d1pw4a_ 16.1 15 Fold:MFS general substrate transporter Superfamily:MFS general substrate transporter Family:Glycerol-3-phosphate transporter 4 c2xutC_ 12.6 15 PDB header:transport protein Chain: C: PDB Molecule:proton/peptide symporter family protein; PDBTitle: crystal structure of a proton dependent oligopeptide (pot)2 family transporter. 5 c1w8xP_ 10.3 50 PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 6 c3o7pA_ 10.3 18 PDB header:transport protein Chain: A: PDB Molecule:l-fucose-proton symporter; PDBTitle: crystal structure of the e.coli fucose:proton symporter, fucp (n162a) 7 d2ipqx1 8.2 36 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:STY4665 C-terminal domain-like 8 c3msqC_ 7.3 38 PDB header:biosynthetic protein Chain: C: PDB Molecule:putative ubiquinone biosynthesis protein; PDBTitle: crystal structure of a putative ubiquinone biosynthesis protein2 (npun02000094) from nostoc punctiforme pcc 73102 at 2.85 a resolution 9 d1b1ya_ 6.6 38 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 10 c6rlxB_ 6.5 33 PDB header:hormone(muscle relaxant) Chain: B: PDB Molecule:relaxin, b-chain; PDBTitle: x-ray structure of human relaxin at 1.5 angstroms. comparison to2 insulin and implications for receptor binding determinants 11 c2kbvA_ 6.1 30 PDB header:membrane protein Chain: A: PDB Molecule:sodium/hydrogen exchanger 1; PDBTitle: structural and functional analysis of tm xi of the nhe12 isoform of the na+/h+ exchanger 12 c2gfpA_ 6.1 23 PDB header:membrane protein Chain: A: PDB Molecule:multidrug resistance protein d; PDBTitle: structure of the multidrug transporter emrd from2 escherichia coli 13 c3dveB_ 5.9 63 PDB header:membrane protein Chain: B: PDB Molecule:voltage-dependent n-type calcium channel subunit alpha-1b; PDBTitle: crystal structure of ca2+/cam-cav2.2 iq domain complex 14 c2xfyA_ 5.7 35 PDB header:hydrolase Chain: A: PDB Molecule:beta-amylase; PDBTitle: crystal structure of barley beta-amylase complexed with2 alpha-cyclodextrin 15 d1wdpa1 5.7 24 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 16 c3kb4D_ 5.5 31 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:alr8543 protein; PDBTitle: crystal structure of the alr8543 protein in complex with2 geranylgeranyl monophosphate and magnesium ion from nostoc sp. pcc3 7120, northeast structural genomics consortium target nsr141 17 d1fa2a_ 5.1 24 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:Amylase, catalytic domain 18 d2fnoa1 5.1 28 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Glutathione S-transferase (GST), C-terminal domain

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

---

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