Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	G	D	I	L	Q	T	P	D	A	P	K	P	Q	G	A	L	D	N	Y	F	K	I	T	A	R	G	S	T	V	R	Q	E	V	L	A	G	L	T	T	F	L	A	M	V	Y	S	V	I	V	V	P	G	M	L	G	K	A	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?									?																																?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		F	P	P	A	A	V	F	V	A	T	C	L	V	A	G	F	G	S	L	L	M	G	L	W	A	N	L	P	M	A	I	G	C	A	I	S	L	T	A	F	T	A	F	S	L	V	L	G	Q	Q	I	S	V	P	V	A	L	G	A	V
Secondary structure
SS confidence
Disorder				?																							?	?	?	?	?	?	?	?														?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		F	L	M	G	V	I	F	T	A	I	S	V	T	G	V	R	T	W	I	L	R	N	L	P	M	G	I	A	H	G	T	G	I	G	I	G	L	F	L	L	L	I	A	A	N	G	V	G	M	V	I	K	N	P	I	E	G	L	P	V
Secondary structure
SS confidence
Disorder																																													?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	L	G	A	F	T	S	F	P	V	M	M	S	L	L	G	L	A	V	I	F	G	L	E	K	C	R	V	P	G	G	I	L	L	V	I	I	A	I	S	I	I	G	L	I	F	D	P	A	V	K	Y	H	G	L	V	A	M	P	S
Secondary structure
SS confidence
Disorder																																																			?	?	?	?		?		?			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	T	G	E	D	G	K	S	L	I	F	S	L	D	I	M	G	A	L	Q	P	T	V	L	P	S	V	L	A	L	V	M	T	A	V	F	D	A	T	G	T	I	R	A	V	A	G	Q	A	N	L	L	D	K	D	N	Q	I	I	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?				?	?			?																															?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		G	G	K	A	L	T	S	D	S	V	S	S	I	F	S	G	L	V	G	A	A	P	A	A	V	Y	I	E	S	A	A	G	T	A	A	G	G	K	T	G	L	T	A	T	V	V	G	A	L	F	L	L	I	L	F	L	S	P	L	S
Secondary structure
SS confidence
Disorder		?																	?	?	?			?					?						?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.	420
Sequence		F	L	I	P	G	Y	A	T	A	P	A	L	M	Y	V	G	L	L	M	L	S	N	V	S	K	L	D	F	N	D	F	I	D	A	M	A	G	L	V	C	A	V	F	I	V	L	T	C	N	I	V	T	G	I	M	L	G	F	V	T
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	430	.	.	.	.	.	.	.	.	.	440	.	.	.	.	.	.	.	.	.	450	.	.	.	.	.
Sequence		L	V	V	G	R	V	F	A	R	E	W	Q	K	L	N	I	G	T	V	I	I	T	A	A	L	V	A	F	Y	A	G	G	W	A	I
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 3qe7 chain A Region: 20 - 429 Aligned: 387 Modelled: 407 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa Phyre2 PDB 3lpz chain A Region: 307 - 322 Aligned: 16 Modelled: 16 Confidence: 25.2% Identity: 19% PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 Phyre2 PDB 1v54 chain L Region: 438 - 454 Aligned: 17 Modelled: 17 Confidence: 19.1% Identity: 24% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Family: Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Phyre2 PDB 3iys chain A Region: 18 - 32 Aligned: 15 Modelled: 15 Confidence: 16.5% Identity: 47% PDB header:virus Chain: A: PDB Molecule:major capsid protein vp1; PDBTitle: homology model of avian polyomavirus asymmetric unit Phyre2 PDB 1w3g chain A Region: 17 - 33 Aligned: 17 Modelled: 17 Confidence: 13.3% Identity: 29% PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. Phyre2 PDB 2x7l chain P Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 11.2% Identity: 27% PDB header:immune system Chain: P: PDB Molecule:hiv rev; PDBTitle: implications of the hiv-1 rev dimer structure at 3.2a2 resolution for multimeric binding to the rev response3 element Phyre2 PDB 2y69 chain Y Region: 439 - 454 Aligned: 16 Modelled: 16 Confidence: 10.7% Identity: 25% PDB header:electron transport Chain: Y: PDB Molecule:cytochrome c oxidase subunit 7c; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 1sid chain A Region: 18 - 33 Aligned: 16 Modelled: 16 Confidence: 10.3% Identity: 50% Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily: Group I dsDNA viruses Family: Papovaviridae-like VP Phyre2 PDB 1sva chain 1 Region: 18 - 32 Aligned: 15 Modelled: 15 Confidence: 9.9% Identity: 53% Fold: Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily: Group I dsDNA viruses Family: Papovaviridae-like VP Phyre2 PDB 3lph chain D Region: 5 - 17 Aligned: 13 Modelled: 13 Confidence: 9.0% Identity: 31% PDB header:viral protein Chain: D: PDB Molecule:protein rev; PDBTitle: crystal structure of the hiv-1 rev dimer Phyre2 PDB 1hyn chain Q Region: 19 - 43 Aligned: 25 Modelled: 25 Confidence: 8.6% Identity: 36% PDB header:membrane protein Chain: Q: PDB Molecule:band 3 anion transport protein; PDBTitle: crystal structure of the cytoplasmic domain of human2 erythrocyte band-3 protein Phyre2 PDB 3er7 chain A domain 1 Region: 18 - 35 Aligned: 18 Modelled: 18 Confidence: 8.4% Identity: 28% Fold: Cystatin-like Superfamily: NTF2-like Family: Exig0174-like Phyre2 PDB 1hyn chain P Region: 19 - 43 Aligned: 25 Modelled: 25 Confidence: 8.4% Identity: 36% Fold: Phoshotransferase/anion transport protein Superfamily: Phoshotransferase/anion transport protein Family: Anion transport protein, cytoplasmic domain Phyre2 PDB 2elp chain A Region: 17 - 37 Aligned: 19 Modelled: 21 Confidence: 7.5% Identity: 32% PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 Phyre2 PDB 3hfx chain A Region: 7 - 318 Aligned: 288 Modelled: 299 Confidence: 7.5% Identity: 9% PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter Phyre2 PDB 2kku chain A Region: 12 - 23 Aligned: 12 Modelled: 12 Confidence: 7.4% Identity: 42% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of protein af2351 from archaeoglobus2 fulgidus. northeast structural genomics consortium target3 att9/ontario center for structural proteomics target af2351 Phyre2 PDB 1pv0 chain A Region: 17 - 37 Aligned: 19 Modelled: 21 Confidence: 7.4% Identity: 21% Fold: Long alpha-hairpin Superfamily: Sporulation inhibitor Sda Family: Sporulation inhibitor Sda Phyre2 PDB 3din chain D Region: 381 - 428 Aligned: 48 Modelled: 48 Confidence: 7.2% Identity: 10% PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase Phyre2 PDB 3kih chain C Region: 2 - 28 Aligned: 26 Modelled: 27 Confidence: 7.1% Identity: 23% PDB header:sugar binding protein Chain: C: PDB Molecule:5-bladed -propeller lectin; PDBTitle: the crystal structures of two fragments truncated from 5-bladed -2 propeller lectin, tachylectin-2 (lib2-d2-15) Phyre2 PDB 1txn chain A Region: 15 - 28 Aligned: 14 Modelled: 14 Confidence: 6.7% Identity: 43% Fold: Coproporphyrinogen III oxidase Superfamily: Coproporphyrinogen III oxidase Family: Coproporphyrinogen III oxidase Phyre2 1 c3qe7A_ 2 c3lpzA_ 3 d1v54l_ 4 c3iysA_ 5 c1w3gA_ 6 c2x7lP_ 7 c2y69Y_ 8 d1sida_ 9 d1sva1_ 10 c3lphD_ 11 c1hynQ_ 12 d3er7a1 13 d1hynp_ 14 c2elpA_ 15 c3hfxA_ 16 c2kkuA_ 17 d1pv0a_ 18 c3dinD_ 19 c3kihC_ 20 d1txna_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43

Detailed template information

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

1 c3qe7A_ 100.0 13 PDB header:transport protein Chain: A: PDB Molecule:uracil permease; PDBTitle: crystal structure of uracil transporter--uraa 2 c3lpzA_ 25.2 19 PDB header:protein transport Chain: A: PDB Molecule:get4 (yor164c homolog); PDBTitle: crystal structure of c. therm. get4 3 d1v54l_ 19.1 24 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) Family:Mitochondrial cytochrome c oxidase subunit VIIc (aka VIIIa) 4 c3iysA_ 16.5 47 PDB header:virus Chain: A: PDB Molecule:major capsid protein vp1; PDBTitle: homology model of avian polyomavirus asymmetric unit 5 c1w3gA_ 13.3 29 PDB header:toxin/lectin Chain: A: PDB Molecule:hemolytic lectin from laetiporus sulphureus; PDBTitle: hemolytic lectin from the mushroom laetiporus sulphureus2 complexed with two n-acetyllactosamine molecules. 6 c2x7lP_ 11.2 27 PDB header:immune system Chain: P: PDB Molecule:hiv rev; PDBTitle: implications of the hiv-1 rev dimer structure at 3.2a2 resolution for multimeric binding to the rev response3 element 7 c2y69Y_ 10.7 25 PDB header:electron transport Chain: Y: PDB Molecule:cytochrome c oxidase subunit 7c; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 8 d1sida_ 10.3 50 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Group I dsDNA viruses Family:Papovaviridae-like VP 9 d1sva1_ 9.9 53 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Group I dsDNA viruses Family:Papovaviridae-like VP 10 c3lphD_ 9.0 31 PDB header:viral protein Chain: D: PDB Molecule:protein rev; PDBTitle: crystal structure of the hiv-1 rev dimer 11 c1hynQ_ 8.6 36 PDB header:membrane protein Chain: Q: PDB Molecule:band 3 anion transport protein; PDBTitle: crystal structure of the cytoplasmic domain of human2 erythrocyte band-3 protein 12 d3er7a1 8.4 28 Fold:Cystatin-like Superfamily:NTF2-like Family:Exig0174-like 13 d1hynp_ 8.4 36 Fold:Phoshotransferase/anion transport protein Superfamily:Phoshotransferase/anion transport protein Family:Anion transport protein, cytoplasmic domain 14 c2elpA_ 7.5 32 PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 15 c3hfxA_ 7.5 9 PDB header:transport protein Chain: A: PDB Molecule:l-carnitine/gamma-butyrobetaine antiporter; PDBTitle: crystal structure of carnitine transporter 16 c2kkuA_ 7.4 42 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of protein af2351 from archaeoglobus2 fulgidus. northeast structural genomics consortium target3 att9/ontario center for structural proteomics target af2351 17 d1pv0a_ 7.4 21 Fold:Long alpha-hairpin Superfamily:Sporulation inhibitor Sda Family:Sporulation inhibitor Sda 18 c3dinD_ 7.2 10 PDB header:membrane protein, protein transport Chain: D: PDB Molecule:preprotein translocase subunit sece; PDBTitle: crystal structure of the protein-translocation complex formed by the2 secy channel and the seca atpase 19 c3kihC_ 7.1 23 PDB header:sugar binding protein Chain: C: PDB Molecule:5-bladed -propeller lectin; PDBTitle: the crystal structures of two fragments truncated from 5-bladed -2 propeller lectin, tachylectin-2 (lib2-d2-15) 20 d1txna_ 6.7 43 Fold:Coproporphyrinogen III oxidase Superfamily:Coproporphyrinogen III oxidase Family:Coproporphyrinogen III oxidase 21 d2gr7a1 not modelled 6.5 18 Fold:Pili subunits Superfamily:Pili subunits Family:YadA C-terminal domain-like 22 c2gr7C_ not modelled 6.5 18 PDB header:membrane protein Chain: C: PDB Molecule:adhesin; PDBTitle: hia 992-1098 23 c2ziiA_ not modelled 6.5 21 PDB header:protein transport Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 74; PDBTitle: crystal structure of yeast vps74-n-term truncation variant 24 c2zihC_ not modelled 6.4 21 PDB header:protein transport Chain: C: PDB Molecule:vacuolar protein sorting-associated protein 74; PDBTitle: crystal structure of yeast vps74 25 c2aexA_ not modelled 6.3 43 PDB header:oxidoreductase Chain: A: PDB Molecule:coproporphyrinogen iii oxidase, mitochondrial; PDBTitle: the 1.58a crystal structure of human coproporphyrinogen oxidase2 reveals the structural basis of hereditary coproporphyria 26 c3ns4A_ not modelled 6.2 14 PDB header:protein binding Chain: A: PDB Molecule:vacuolar protein sorting-associated protein 53; PDBTitle: structure of a c-terminal fragment of its vps53 subunit suggests2 similarity of garp to a family of tethering complexes 27 c1u7bB_ not modelled 6.1 35 PDB header:replication Chain: B: PDB Molecule:srqgstqgrlddffkvtgsl peptide of flap PDBTitle: crystal structure of hpcna bound to residues 331-350 of the2 flap endonuclease-1 (fen1) 28 c3hymA_ not modelled 6.1 17 PDB header:cell cycle, ligase Chain: A: PDB Molecule:anaphase-promoting complex subunit cdc26; PDBTitle: insights into anaphase promoting complex tpr subdomain2 assembly from a cdc26-apc6 structure 29 c3hymE_ not modelled 6.1 17 PDB header:cell cycle, ligase Chain: E: PDB Molecule:anaphase-promoting complex subunit cdc26; PDBTitle: insights into anaphase promoting complex tpr subdomain2 assembly from a cdc26-apc6 structure 30 c3hymI_ not modelled 6.1 17 PDB header:cell cycle, ligase Chain: I: PDB Molecule:anaphase-promoting complex subunit cdc26; PDBTitle: insights into anaphase promoting complex tpr subdomain2 assembly from a cdc26-apc6 structure 31 d1tkla_ not modelled 6.0 43 Fold:Coproporphyrinogen III oxidase Superfamily:Coproporphyrinogen III oxidase Family:Coproporphyrinogen III oxidase 32 c3omdB_ not modelled 6.0 18 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of unknown function protein from leptospirillum2 rubarum 33 c2ogfD_ not modelled 5.9 36 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein mj0408; PDBTitle: crystal structure of protein mj0408 from methanococcus jannaschii,2 pfam duf372 34 d1vjua_ not modelled 5.9 35 Fold:Coproporphyrinogen III oxidase Superfamily:Coproporphyrinogen III oxidase Family:Coproporphyrinogen III oxidase 35 d1vqoi1 not modelled 5.8 32 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Ribosomal protein L11, C-terminal domain Family:Ribosomal protein L11, C-terminal domain 36 c1vq8I_ not modelled 5.8 32 PDB header:ribosome Chain: I: PDB Molecule:50s ribosomal protein l11p; PDBTitle: the structure of ccda-phe-cap-bio and the antibiotic sparsomycin bound2 to the large ribosomal subunit of haloarcula marismortui 37 c1bmxA_ not modelled 5.6 37 PDB header:viral protein Chain: A: PDB Molecule:human immunodeficiency virus type 1 capsid; PDBTitle: hiv-1 capsid protein major homology region peptide analog,2 nmr, 8 structures 38 c2ht2B_ not modelled 5.5 13 PDB header:membrane protein Chain: B: PDB Molecule:h(+)/cl(-) exchange transporter clca; PDBTitle: structure of the escherichia coli clc chloride channel2 y445h mutant and fab complex 39 c1zv8I_ not modelled 5.3 7 PDB header:viral protein Chain: I: PDB Molecule:e2 glycoprotein; PDBTitle: a structure-based mechanism of sars virus membrane fusion 40 d1avwb_ not modelled 5.3 21 Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors 41 c1btqA_ not modelled 5.2 18 PDB header:anion transport Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 42 c1btrA_ not modelled 5.2 18 PDB header:anion transport Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 43 d1q90m_ not modelled 5.2 32 Fold:Single transmembrane helix Superfamily:PetM subunit of the cytochrome b6f complex Family:PetM subunit of the cytochrome b6f complex

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