Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	V	N	V	R	Q	P	R	D	V	A	Q	I	L	L	S	V	L	F	L	A	I	M	I	V	A	C	L	W	I	V	Q	P	F	I	L	G	F	A	W	A	G	T	V	V	I	A	T	W	P	V	L	L	R	L	Q	K	I	M	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																																					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	R	R	S	L	A	V	L	V	M	T	L	L	L	V	M	V	F	I	I	P	I	A	L	L	V	N	S	I	V	D	G	S	G	P	L	I	K	A	I	S	S	G	D	M	T	L	P	D	L	A	W	L	N	T	I	P	V	I	G
Secondary structure
SS confidence
Disorder																																												?	?			?		?								?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	K	L	Y	A	G	W	H	N	L	L	D	M	G	G	T	A	I	M	A	K	V	R	P	Y	I	G	T	T	T	T	W	F	V	G	Q	A	A	H	I	G	R	F	M	V	H	C	A	L	M	L	L	F	S	A	L	L	Y	W	R
Secondary structure
SS confidence
Disorder														?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		G	E	Q	V	A	Q	G	I	R	H	F	A	T	R	L	A	G	V	R	G	D	A	A	V	L	L	A	A	Q	A	I	R	A	V	A	L	G	V	V	V	T	A	L	V	Q	A	V	L	G	G	I	G	L	A	V	S	G	V	P	Y
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	T	L	L	T	V	L	M	I	L	S	C	L	V	Q	L	G	P	L	P	V	L	I	P	A	I	I	W	L	Y	W	T	G	D	T	T	W	G	T	V	L	L	V	W	S	G	V	V	G	T	L	D	N	V	I	R	P	M	L	I
Secondary structure
SS confidence
Disorder																																																													?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		R	M	G	A	D	L	P	L	I	L	I	L	S	G	V	I	G	G	L	I	A	F	G	M	I	G	L	F	I	G	P	V	L	L	A	V	S	W	R	L	F	A	A	W	V	E	E	V	P	P	P	T	D	Q	P	E	E	I	L	E
Secondary structure
SS confidence
Disorder		?	?		?																																												?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370
Sequence		E	L	G	E	I	E	K	P	N	K
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 2knc chain A Region: 301 - 360 Aligned: 49 Modelled: 60 Confidence: 67.0% Identity: 27% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex Phyre2 PDB 1kkx chain A Region: 297 - 364 Aligned: 68 Modelled: 68 Confidence: 37.2% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: ARID-like Family: ARID domain Phyre2 PDB 3eh4 chain A Region: 318 - 370 Aligned: 53 Modelled: 53 Confidence: 23.3% Identity: 11% PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus Phyre2 PDB 1xme chain A domain 1 Region: 318 - 370 Aligned: 53 Modelled: 53 Confidence: 19.6% Identity: 11% Fold: Cytochrome c oxidase subunit I-like Superfamily: Cytochrome c oxidase subunit I-like Family: Cytochrome c oxidase subunit I-like Phyre2 PDB 2jln chain A Region: 308 - 365 Aligned: 58 Modelled: 58 Confidence: 10.5% Identity: 10% PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter Phyre2 PDB 2jwa chain A Region: 305 - 333 Aligned: 29 Modelled: 29 Confidence: 8.8% Identity: 10% PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure Phyre2 PDB 2w8a chain C Region: 68 - 367 Aligned: 244 Modelled: 253 Confidence: 8.2% Identity: 12% PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate Phyre2 PDB 2hg5 chain D Region: 318 - 353 Aligned: 36 Modelled: 36 Confidence: 8.1% Identity: 8% PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter Phyre2 PDB 1ryu chain A Region: 297 - 365 Aligned: 69 Modelled: 69 Confidence: 7.8% Identity: 16% Fold: DNA/RNA-binding 3-helical bundle Superfamily: ARID-like Family: ARID domain Phyre2 PDB 3qnq chain D Region: 324 - 360 Aligned: 37 Modelled: 37 Confidence: 7.5% Identity: 5% 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 2eqy chain A Region: 297 - 370 Aligned: 74 Modelled: 74 Confidence: 7.4% Identity: 14% PDB header:dna binding protein Chain: A: PDB Molecule:jumonji, at rich interactive domain 1b; PDBTitle: solution structure of the arid domain of jarid1b protein Phyre2 PDB 2jo1 chain A Region: 324 - 365 Aligned: 42 Modelled: 42 Confidence: 7.0% Identity: 14% PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles Phyre2 PDB 3mku chain A Region: 3 - 361 Aligned: 341 Modelled: 341 Confidence: 6.8% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:multi antimicrobial extrusion protein (na(+)/drug PDBTitle: structure of a cation-bound multidrug and toxin compound extrusion2 (mate) transporter Phyre2 PDB 2iz1 chain C Region: 329 - 370 Aligned: 42 Modelled: 42 Confidence: 6.8% Identity: 14% PDB header:oxidoreductase Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating; PDBTitle: 6pdh complexed with pex inhibitor synchrotron data Phyre2 PDB 2qts chain A Region: 319 - 341 Aligned: 23 Modelled: 23 Confidence: 6.3% Identity: 35% PDB header:membrane protein Chain: A: PDB Molecule:acid-sensing ion channel; PDBTitle: structure of an acid-sensing ion channel 1 at 1.9 a resolution and low2 ph Phyre2 PDB 3rlb chain A Region: 241 - 346 Aligned: 97 Modelled: 106 Confidence: 6.2% Identity: 19% PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter Phyre2 PDB 2jp3 chain A Region: 324 - 367 Aligned: 44 Modelled: 44 Confidence: 6.1% Identity: 14% PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles Phyre2 PDB 2kb1 chain A Region: 319 - 354 Aligned: 36 Modelled: 36 Confidence: 5.7% Identity: 8% PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa Phyre2 PDB 1iwg chain A domain 8 Region: 277 - 361 Aligned: 85 Modelled: 85 Confidence: 5.7% Identity: 8% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2ww9 chain B Region: 311 - 337 Aligned: 27 Modelled: 27 Confidence: 5.6% Identity: 37% PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome Phyre2 1 c2kncA_ 2 d1kkxa_ 3 c3eh4A_ 4 d1xmea1 5 c2jlnA_ 6 c2jwaA_ 7 c2w8aC_ 8 c2hg5D_ 9 d1ryua_ 10 c3qnqD_ 11 c2eqyA_ 12 c2jo1A_ 13 c3mkuA_ 14 c2iz1C_ 15 c2qtsA_ 16 c3rlbA_ 17 c2jp3A_ 18 c2kb1A_ 19 d1iwga8 20 c2ww9B_

Detailed template information

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

1 c2kncA_ 67.0 27 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 2 d1kkxa_ 37.2 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:ARID-like Family:ARID domain 3 c3eh4A_ 23.3 11 PDB header:oxidoreductase Chain: A: PDB Molecule:cytochrome c oxidase subunit 1; PDBTitle: structure of the reduced form of cytochrome ba3 oxidase from thermus2 thermophilus 4 d1xmea1 19.6 11 Fold:Cytochrome c oxidase subunit I-like Superfamily:Cytochrome c oxidase subunit I-like Family:Cytochrome c oxidase subunit I-like 5 c2jlnA_ 10.5 10 PDB header:membrane protein Chain: A: PDB Molecule:mhp1; PDBTitle: structure of mhp1, a nucleobase-cation-symport-1 family2 transporter 6 c2jwaA_ 8.8 10 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure 7 c2w8aC_ 8.2 12 PDB header:membrane protein Chain: C: PDB Molecule:glycine betaine transporter betp; PDBTitle: crystal structure of the sodium-coupled glycine betaine2 symporter betp from corynebacterium glutamicum with bound3 substrate 8 c2hg5D_ 8.1 8 PDB header:membrane protein Chain: D: PDB Molecule:kcsa channel; PDBTitle: cs+ complex of a k channel with an amide to ester substitution in the2 selectivity filter 9 d1ryua_ 7.8 16 Fold:DNA/RNA-binding 3-helical bundle Superfamily:ARID-like Family:ARID domain 10 c3qnqD_ 7.5 5 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 11 c2eqyA_ 7.4 14 PDB header:dna binding protein Chain: A: PDB Molecule:jumonji, at rich interactive domain 1b; PDBTitle: solution structure of the arid domain of jarid1b protein 12 c2jo1A_ 7.0 14 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 13 c3mkuA_ 6.8 13 PDB header:transport protein Chain: A: PDB Molecule:multi antimicrobial extrusion protein (na(+)/drug PDBTitle: structure of a cation-bound multidrug and toxin compound extrusion2 (mate) transporter 14 c2iz1C_ 6.8 14 PDB header:oxidoreductase Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating; PDBTitle: 6pdh complexed with pex inhibitor synchrotron data 15 c2qtsA_ 6.3 35 PDB header:membrane protein Chain: A: PDB Molecule:acid-sensing ion channel; PDBTitle: structure of an acid-sensing ion channel 1 at 1.9 a resolution and low2 ph 16 c3rlbA_ 6.2 19 PDB header:thiamine-binding protein Chain: A: PDB Molecule:thit; PDBTitle: crystal structure at 2.0 a of the s-component for thiamin from an ecf-2 type abc transporter 17 c2jp3A_ 6.1 14 PDB header:transcription Chain: A: PDB Molecule:fxyd domain-containing ion transport regulator 4; PDBTitle: solution structure of the human fxyd4 (chif) protein in sds2 micelles 18 c2kb1A_ 5.7 8 PDB header:membrane protein Chain: A: PDB Molecule:wsk3; PDBTitle: nmr studies of a channel protein without membrane:2 structure and dynamics of water-solubilized kcsa 19 d1iwga8 5.7 8 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 20 c2ww9B_ 5.6 37 PDB header:ribosome Chain: B: PDB Molecule:protein transport protein sss1; PDBTitle: cryo-em structure of the active yeast ssh1 complex bound to the2 yeast 80s ribosome

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