Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	N	I	K	F	S	L	A	W	Q	I	L	F	A	M	V	L	G	I	L	L	G	S	Y	L	H	Y	H	S	D	S	R	D	W	L	V	V	N	L	L	S	P	A	G	D	I	F	I	H	L	I	K	M	I	V	V	P	I	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																								?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		I	S	T	L	V	V	G	I	A	G	V	G	D	A	K	Q	L	G	R	I	G	A	K	T	I	I	Y	F	E	V	I	T	T	V	A	I	I	L	G	I	T	L	A	N	V	F	Q	P	G	A	G	V	D	M	S	Q	L	A	T	V
Secondary structure
SS confidence
Disorder										?	?	?	?	?	?	?																																		?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	I	S	K	Y	Q	S	T	T	E	A	V	Q	S	S	S	H	G	I	M	G	T	I	L	S	L	V	P	T	N	I	V	A	S	M	A	K	G	E	M	L	P	I	I	F	F	S	V	L	F	G	L	G	L	S	S	L	P	A	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?																																						?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		H	R	E	P	L	V	T	V	F	R	S	I	S	E	T	M	F	K	V	T	H	M	V	M	R	Y	A	P	V	G	V	F	A	L	I	A	V	T	V	A	N	F	G	F	S	S	L	W	P	L	A	K	L	V	L	L	V	H	F	A
Secondary structure
SS confidence
Disorder																																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		I	L	F	F	A	L	V	V	L	G	I	V	A	R	L	C	G	L	S	V	W	I	L	I	R	I	L	K	D	E	L	I	L	A	Y	S	T	A	S	S	E	S	V	L	P	R	I	I	E	K	M	E	A	Y	G	A	P	V	S	I
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		T	S	F	V	V	P	T	G	Y	S	F	N	L	D	G	S	T	L	Y	Q	S	I	A	A	I	F	I	A	Q	L	Y	G	I	D	L	S	I	W	Q	E	I	I	L	V	L	T	L	M	V	T	S	K	G	I	A	G	V	P	G	V
Secondary structure
SS confidence
Disorder																																																					?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		S	F	V	V	L	L	A	T	L	G	S	V	G	I	P	L	E	G	L	A	F	I	A	G	V	D	R	I	L	D	M	A	R	T	A	L	N	V	V	G	N	A	L	A	V	L	V	I	A	K	W	E	H	K	F	D	R	K	K	A
Secondary structure
SS confidence
Disorder													?	?	?																																									?					?
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.
Sequence		L	A	Y	E	R	E	V	L	G	K	F	D	K	T	A	D	Q
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: 8 - 412 Aligned: 392 Modelled: 395 Confidence: 100.0% Identity: 36% Fold: Proton glutamate symport protein Superfamily: Proton glutamate symport protein Family: Proton glutamate symport protein Phyre2 PDB 1a77 chain A domain 1 Region: 335 - 373 Aligned: 38 Modelled: 39 Confidence: 48.3% Identity: 21% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1dpq chain A Region: 420 - 437 Aligned: 18 Modelled: 17 Confidence: 28.8% Identity: 17% PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib subunit; PDBTitle: solution structure of the constitutively active mutant of2 the integrin alpha iib cytoplasmic domain. Phyre2 PDB 1mc8 chain A domain 1 Region: 335 - 373 Aligned: 38 Modelled: 39 Confidence: 28.5% Identity: 18% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1iwg chain A domain 8 Region: 159 - 262 Aligned: 104 Modelled: 104 Confidence: 26.8% Identity: 5% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 1b43 chain A domain 1 Region: 335 - 373 Aligned: 38 Modelled: 39 Confidence: 21.4% Identity: 18% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 3ah5 chain E Region: 289 - 313 Aligned: 25 Modelled: 25 Confidence: 18.4% Identity: 12% PDB header:transferase Chain: E: PDB Molecule:thymidylate synthase thyx; PDBTitle: crystal structure of flavin dependent thymidylate synthase thyx from2 helicobacter pylori complexed with fad and dump Phyre2 PDB 1ul1 chain X domain 1 Region: 335 - 373 Aligned: 37 Modelled: 39 Confidence: 18.3% Identity: 16% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1rxw chain A domain 1 Region: 335 - 373 Aligned: 37 Modelled: 39 Confidence: 18.2% Identity: 24% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 1o26 chain A Region: 289 - 313 Aligned: 25 Modelled: 25 Confidence: 15.7% Identity: 16% Fold: Thymidylate synthase-complementing protein Thy1 Superfamily: Thymidylate synthase-complementing protein Thy1 Family: Thymidylate synthase-complementing protein Thy1 Phyre2 PDB 1xo1 chain A domain 1 Region: 336 - 373 Aligned: 38 Modelled: 38 Confidence: 12.9% Identity: 21% Fold: SAM domain-like Superfamily: 5' to 3' exonuclease, C-terminal subdomain Family: 5' to 3' exonuclease, C-terminal subdomain Phyre2 PDB 2klz chain A Region: 412 - 436 Aligned: 25 Modelled: 25 Confidence: 11.3% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:ataxin-3; PDBTitle: solution structure of the tandem uim domain of ataxin-3 complexed with2 ubiquitin Phyre2 PDB 1fp1 chain D domain 1 Region: 280 - 302 Aligned: 23 Modelled: 23 Confidence: 8.9% Identity: 13% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Plant O-methyltransferase, N-terminal domain Phyre2 PDB 2vy8 chain A Region: 176 - 210 Aligned: 35 Modelled: 35 Confidence: 8.6% Identity: 11% PDB header:transcription Chain: A: PDB Molecule:polymerase basic protein 2; PDBTitle: the 627-domain from influenza a virus polymerase pb22 subunit with glu-627 Phyre2 PDB 2e74 chain E domain 1 Region: 10 - 26 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 24% Fold: Single transmembrane helix Superfamily: PetL subunit of the cytochrome b6f complex Family: PetL subunit of the cytochrome b6f complex Phyre2 PDB 2e75 chain E Region: 10 - 26 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 24% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus Phyre2 PDB 2e76 chain E Region: 10 - 26 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 24% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 PDB 2e74 chain E Region: 10 - 26 Aligned: 17 Modelled: 17 Confidence: 7.8% Identity: 24% PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain R Region: 10 - 27 Aligned: 18 Modelled: 18 Confidence: 7.7% Identity: 22% PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 PDB 1vf5 chain E Region: 10 - 27 Aligned: 18 Modelled: 18 Confidence: 7.7% Identity: 22% PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus Phyre2 1 d2nwwa1 2 d1a77a1 3 c1dpqA_ 4 d1mc8a1 5 d1iwga8 6 d1b43a1 7 c3ah5E_ 8 d1ul1x1 9 d1rxwa1 10 d1o26a_ 11 d1xo1a1 12 c2klzA_ 13 d1fp1d1 14 c2vy8A_ 15 d2e74e1 16 c2e75E_ 17 c2e76E_ 18 c2e74E_ 19 c1vf5R_ 20 c1vf5E_ 21 22 23 24 25 26 27 28 29 30 31 32

Detailed template information

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

1 d2nwwa1 100.0 36 Fold:Proton glutamate symport protein Superfamily:Proton glutamate symport protein Family:Proton glutamate symport protein 2 d1a77a1 48.3 21 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 3 c1dpqA_ 28.8 17 PDB header:cell adhesion Chain: A: PDB Molecule:integrin alpha-iib subunit; PDBTitle: solution structure of the constitutively active mutant of2 the integrin alpha iib cytoplasmic domain. 4 d1mc8a1 28.5 18 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 5 d1iwga8 26.8 5 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 6 d1b43a1 21.4 18 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 7 c3ah5E_ 18.4 12 PDB header:transferase Chain: E: PDB Molecule:thymidylate synthase thyx; PDBTitle: crystal structure of flavin dependent thymidylate synthase thyx from2 helicobacter pylori complexed with fad and dump 8 d1ul1x1 18.3 16 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 9 d1rxwa1 18.2 24 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 10 d1o26a_ 15.7 16 Fold:Thymidylate synthase-complementing protein Thy1 Superfamily:Thymidylate synthase-complementing protein Thy1 Family:Thymidylate synthase-complementing protein Thy1 11 d1xo1a1 12.9 21 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 12 c2klzA_ 11.3 36 PDB header:hydrolase Chain: A: PDB Molecule:ataxin-3; PDBTitle: solution structure of the tandem uim domain of ataxin-3 complexed with2 ubiquitin 13 d1fp1d1 8.9 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Plant O-methyltransferase, N-terminal domain 14 c2vy8A_ 8.6 11 PDB header:transcription Chain: A: PDB Molecule:polymerase basic protein 2; PDBTitle: the 627-domain from influenza a virus polymerase pb22 subunit with glu-627 15 d2e74e1 7.8 24 Fold:Single transmembrane helix Superfamily:PetL subunit of the cytochrome b6f complex Family:PetL subunit of the cytochrome b6f complex 16 c2e75E_ 7.8 24 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with 2-nonyl-4-2 hydroxyquinoline n-oxide (nqno) from m.laminosus 17 c2e76E_ 7.8 24 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 18 c2e74E_ 7.8 24 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from m.laminosus 19 c1vf5R_ 7.7 22 PDB header:photosynthesis Chain: R: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 20 c1vf5E_ 7.7 22 PDB header:photosynthesis Chain: E: PDB Molecule:protein pet l; PDBTitle: crystal structure of cytochrome b6f complex from m.laminosus 21 d1iwga7 not modelled 7.5 8 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 22 c2c9kA_ not modelled 7.4 11 PDB header:toxin Chain: A: PDB Molecule:pesticidal crystal protein cry4aa; PDBTitle: structure of the functional form of the mosquito-larvicidal2 cry4aa toxin from bacillus thuringiensis at 2.8 a3 resolution 23 d1kyza1 not modelled 7.2 29 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Plant O-methyltransferase, N-terminal domain 24 c2izoA_ not modelled 6.8 18 PDB header:hydrolase Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: structure of an archaeal pcna1-pcna2-fen1 complex 25 c3h3mB_ not modelled 6.5 17 PDB header:structural genomics Chain: B: PDB Molecule:flagellar protein flit; PDBTitle: crystal structure of flagellar protein flit from bordetella2 bronchiseptica 26 d1cmwa1 not modelled 6.2 22 Fold:SAM domain-like Superfamily:5' to 3' exonuclease, C-terminal subdomain Family:5' to 3' exonuclease, C-terminal subdomain 27 c2cfaB_ not modelled 5.7 19 PDB header:transferase Chain: B: PDB Molecule:thymidylate synthase; PDBTitle: structure of viral flavin-dependant thymidylate synthase2 thyx 28 c1rxvA_ not modelled 5.7 24 PDB header:hydrolase/dna Chain: A: PDB Molecule:flap structure-specific endonuclease; PDBTitle: crystal structure of a. fulgidus fen-1 bound to dna 29 d2z1ca1 not modelled 5.2 12 Fold:OB-fold Superfamily:HupF/HypC-like Family:HupF/HypC-like 30 c3d9sB_ not modelled 5.2 14 PDB header:membrane protein Chain: B: PDB Molecule:aquaporin-5; PDBTitle: human aquaporin 5 (aqp5) - high resolution x-ray structure 31 c2zt9E_ not modelled 5.1 27 PDB header:photosynthesis Chain: E: PDB Molecule:cytochrome b6-f complex subunit 6; PDBTitle: crystal structure of the cytochrome b6f complex from nostoc sp. pcc2 7120 32 c2jwaA_ not modelled 5.1 32 PDB header:transferase Chain: A: PDB Molecule:receptor tyrosine-protein kinase erbb-2; PDBTitle: erbb2 transmembrane segment dimer spatial structure

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