Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	W	N	Q	P	G	N	N	G	Q	D	R	D	P	W	G	S	S	K	P	G	G	N	S	E	G	N	G	N	K	G	G	R	D	Q	G	P	P	D	L	D	D	I	F	R	K	L	S	K	K	L	G	G	L	G	G	G	K	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?															?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	G	S	G	G	G	S	S	S	Q	G	P	R	P	Q	L	G	G	R	V	V	T	I	A	A	A	A	I	V	I	I	W	A	A	S	G	F	Y	T	I	K	E	A	E	R	G	V	V	T	R	F	G	K	F	S	H	L	V	E	P
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		G	L	N	W	K	P	T	F	I	D	E	V	K	P	V	N	V	E	A	V	R	E	L	A	A	S	G	V	M	L	T	S	D	E	N	V	V	R	V	E	M	N	V	Q	Y	R	V	T	N	P	E	K	Y	L	Y	S	V	T	S	P
Secondary structure
SS confidence
Disorder																								?	?	?	?	?		?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		D	D	S	L	R	Q	A	T	D	S	A	L	R	G	V	I	G	K	Y	T	M	D	R	I	L	T	E	G	R	T	V	I	R	S	D	T	Q	R	E	L	E	E	T	I	R	P	Y	D	M	G	I	T	L	L	D	V	N	F	Q	A
Secondary structure
SS confidence
Disorder																											?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		A	R	P	P	E	E	V	K	A	A	F	D	D	A	I	A	A	R	E	N	E	Q	Q	Y	I	R	E	A	E	A	Y	T	N	E	V	Q	P	R	A	N	G	Q	A	Q	R	I	L	E	E	A	R	A	Y	K	A	Q	T	I	L	E
Secondary structure
SS confidence
Disorder			?	?																																				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.	.	.	.	.	.	.	330	.	.	.	.	.	.	.	.	.	340	.	.	.	.	.	.	.	.	.	350	.	.	.	.	.	.	.	.	.	360
Sequence		A	Q	G	E	V	A	R	F	A	K	L	L	P	E	Y	K	A	A	P	E	I	T	R	E	R	L	Y	I	E	T	M	E	K	V	L	G	N	T	R	K	V	L	V	N	D	K	G	G	N	L	M	V	L	P	L	D	Q	M	L	K
Secondary structure
SS confidence
Disorder		?																																						?								?								?				?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	370	.	.	.	.	.	.	.	.	.	380	.	.	.	.	.	.	.	.	.	390	.	.	.	.	.	.	.	.	.	400	.	.	.	.	.	.	.	.	.	410	.	.	.	.	.	.	.	.	.
Sequence		G	G	N	A	P	A	A	K	S	D	N	G	A	S	N	L	L	R	L	P	P	A	S	S	S	T	T	S	G	A	S	N	T	S	S	T	S	Q	G	D	I	M	D	Q	R	R	A	N	A	Q	R	N	D	Y	Q	R	Q	G	E
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 3bk6 chain C Region: 128 - 289 Aligned: 157 Modelled: 162 Confidence: 99.9% Identity: 25% PDB header:membrane protein Chain: C: PDB Molecule:ph stomatin; PDBTitle: crystal structure of a core domain of stomatin from2 pyrococcus horikoshii Phyre2 PDB 2rpb chain A Region: 134 - 246 Aligned: 110 Modelled: 113 Confidence: 99.8% Identity: 25% PDB header:membrane protein Chain: A: PDB Molecule:hypothetical membrane protein; PDBTitle: the solution structure of membrane protein Phyre2 PDB 1win chain A Region: 130 - 257 Aligned: 125 Modelled: 128 Confidence: 99.7% Identity: 14% Fold: EF-Ts domain-like Superfamily: Band 7/SPFH domain Family: Band 7/SPFH domain Phyre2 PDB 2zv4 chain O Region: 98 - 334 Aligned: 236 Modelled: 237 Confidence: 98.1% Identity: 20% PDB header:structural protein Chain: O: PDB Molecule:major vault protein; PDBTitle: the structure of rat liver vault at 3.5 angstrom resolution Phyre2 PDB 2kk7 chain A Region: 269 - 307 Aligned: 39 Modelled: 39 Confidence: 80.5% Identity: 26% PDB header:hydrolase Chain: A: PDB Molecule:v-type atp synthase subunit e; PDBTitle: nmr solution structure of the n terminal domain of subunit e2 (e1-52) of a1ao atp synthase from methanocaldococcus3 jannaschii Phyre2 PDB 2k88 chain A Region: 276 - 320 Aligned: 42 Modelled: 45 Confidence: 51.3% Identity: 29% PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase Phyre2 PDB 1l2p chain A Region: 264 - 323 Aligned: 58 Modelled: 60 Confidence: 49.5% Identity: 28% Fold: Single transmembrane helix Superfamily: F1F0 ATP synthase subunit B, membrane domain Family: F1F0 ATP synthase subunit B, membrane domain Phyre2 PDB 2kep chain A Region: 3 - 19 Aligned: 17 Modelled: 17 Confidence: 44.4% Identity: 41% PDB header:transport protein Chain: A: PDB Molecule:general secretion pathway protein g; PDBTitle: solution structure of xcpt, the main component of the type 22 secretion system of pseudomonas aeruginosa Phyre2 PDB 3k5b chain E Region: 262 - 337 Aligned: 76 Modelled: 76 Confidence: 43.5% Identity: 13% PDB header:hydrolase Chain: E: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase Phyre2 PDB 3u5g chain B Region: 141 - 241 Aligned: 95 Modelled: 101 Confidence: 33.8% Identity: 17% PDB header:ribosome Chain: B: PDB Molecule:40s ribosomal protein s1-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution Phyre2 PDB 1wd6 chain B Region: 119 - 130 Aligned: 12 Modelled: 12 Confidence: 27.9% Identity: 42% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ydhr; PDBTitle: crystal structure of jw1657 from escherichia coli Phyre2 PDB 1t92 chain A Region: 3 - 19 Aligned: 17 Modelled: 17 Confidence: 25.9% Identity: 29% Fold: Pili subunits Superfamily: Pili subunits Family: Pseudopilin Phyre2 PDB 2i7u chain A Region: 41 - 65 Aligned: 25 Modelled: 25 Confidence: 25.0% Identity: 36% PDB header:de novo protein/ligand binding protein Chain: A: PDB Molecule:four-alpha-helix bundle; PDBTitle: structural and dynamical analysis of a four-alpha-helix2 bundle with designed anesthetic binding pockets Phyre2 PDB 3fu1 chain B Region: 3 - 19 Aligned: 17 Modelled: 17 Confidence: 19.2% Identity: 24% PDB header:protein transport Chain: B: PDB Molecule:general secretion pathway protein g; PDBTitle: crystal structure of the major pseudopilin from the type 2 secretion2 system of vibrio cholerae Phyre2 PDB 2xzm chain 4 Region: 141 - 241 Aligned: 95 Modelled: 101 Confidence: 18.9% Identity: 14% PDB header:ribosome Chain: 4: PDB Molecule:40s ribosomal protein s3a; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 2vgp chain D Region: 37 - 45 Aligned: 9 Modelled: 9 Confidence: 12.8% Identity: 33% PDB header:transferase Chain: D: PDB Molecule:inner centromere protein a; PDBTitle: crystal structure of aurora b kinase in complex with a2 aminothiazole inhibitor Phyre2 PDB 2hiq chain A domain 1 Region: 119 - 130 Aligned: 12 Modelled: 12 Confidence: 12.6% Identity: 42% Fold: Ferredoxin-like Superfamily: Dimeric alpha+beta barrel Family: Hypothetical protein YdhR Phyre2 PDB 1tf5 chain A domain 1 Region: 98 - 123 Aligned: 26 Modelled: 26 Confidence: 11.3% Identity: 23% Fold: Pre-protein crosslinking domain of SecA Superfamily: Pre-protein crosslinking domain of SecA Family: Pre-protein crosslinking domain of SecA Phyre2 PDB 3k5b chain B Region: 263 - 333 Aligned: 68 Modelled: 68 Confidence: 11.0% Identity: 22% PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase, subunit (vapc-therm); PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase Phyre2 PDB 1tt9 chain B Region: 280 - 417 Aligned: 137 Modelled: 138 Confidence: 10.9% Identity: 14% PDB header:transferase, lyase Chain: B: PDB Molecule:formimidoyltransferase-cyclodeaminase PDBTitle: structure of the bifunctional and golgi associated2 formiminotransferase cyclodeaminase octamer Phyre2 1 c3bk6C_ 2 c2rpbA_ 3 d1wina_ 4 c2zv4O_ 5 c2kk7A_ 6 c2k88A_ 7 d1l2pa_ 8 c2kepA_ 9 c3k5bE_ 10 c3u5gB_ 11 c1wd6B_ 12 d1t92a_ 13 c2i7uA_ 14 c3fu1B_ 15 c2xzm4_ 16 c2vgpD_ 17 d2hiqa1 18 d1tf5a1 19 c3k5bB_ 20 c1tt9B_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50

Detailed template information

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

1 c3bk6C_ 99.9 25 PDB header:membrane protein Chain: C: PDB Molecule:ph stomatin; PDBTitle: crystal structure of a core domain of stomatin from2 pyrococcus horikoshii 2 c2rpbA_ 99.8 25 PDB header:membrane protein Chain: A: PDB Molecule:hypothetical membrane protein; PDBTitle: the solution structure of membrane protein 3 d1wina_ 99.7 14 Fold:EF-Ts domain-like Superfamily:Band 7/SPFH domain Family:Band 7/SPFH domain 4 c2zv4O_ 98.1 20 PDB header:structural protein Chain: O: PDB Molecule:major vault protein; PDBTitle: the structure of rat liver vault at 3.5 angstrom resolution 5 c2kk7A_ 80.5 26 PDB header:hydrolase Chain: A: PDB Molecule:v-type atp synthase subunit e; PDBTitle: nmr solution structure of the n terminal domain of subunit e2 (e1-52) of a1ao atp synthase from methanocaldococcus3 jannaschii 6 c2k88A_ 51.3 29 PDB header:hydrolase Chain: A: PDB Molecule:vacuolar proton pump subunit g; PDBTitle: association of subunit d (vma6p) and e (vma4p) with g2 (vma10p) and the nmr solution structure of subunit g (g1-3 59) of the saccharomyces cerevisiae v1vo atpase 7 d1l2pa_ 49.5 28 Fold:Single transmembrane helix Superfamily:F1F0 ATP synthase subunit B, membrane domain Family:F1F0 ATP synthase subunit B, membrane domain 8 c2kepA_ 44.4 41 PDB header:transport protein Chain: A: PDB Molecule:general secretion pathway protein g; PDBTitle: solution structure of xcpt, the main component of the type 22 secretion system of pseudomonas aeruginosa 9 c3k5bE_ 43.5 13 PDB header:hydrolase Chain: E: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase 10 c3u5gB_ 33.8 17 PDB header:ribosome Chain: B: PDB Molecule:40s ribosomal protein s1-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 a resolution 11 c1wd6B_ 27.9 42 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein ydhr; PDBTitle: crystal structure of jw1657 from escherichia coli 12 d1t92a_ 25.9 29 Fold:Pili subunits Superfamily:Pili subunits Family:Pseudopilin 13 c2i7uA_ 25.0 36 PDB header:de novo protein/ligand binding protein Chain: A: PDB Molecule:four-alpha-helix bundle; PDBTitle: structural and dynamical analysis of a four-alpha-helix2 bundle with designed anesthetic binding pockets 14 c3fu1B_ 19.2 24 PDB header:protein transport Chain: B: PDB Molecule:general secretion pathway protein g; PDBTitle: crystal structure of the major pseudopilin from the type 2 secretion2 system of vibrio cholerae 15 c2xzm4_ 18.9 14 PDB header:ribosome Chain: 4: PDB Molecule:40s ribosomal protein s3a; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 16 c2vgpD_ 12.8 33 PDB header:transferase Chain: D: PDB Molecule:inner centromere protein a; PDBTitle: crystal structure of aurora b kinase in complex with a2 aminothiazole inhibitor 17 d2hiqa1 12.6 42 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Hypothetical protein YdhR 18 d1tf5a1 11.3 23 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 19 c3k5bB_ 11.0 22 PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase, subunit (vapc-therm); PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase 20 c1tt9B_ 10.9 14 PDB header:transferase, lyase Chain: B: PDB Molecule:formimidoyltransferase-cyclodeaminase PDBTitle: structure of the bifunctional and golgi associated2 formiminotransferase cyclodeaminase octamer 21 c3kdpD_ not modelled 10.5 18 PDB header:hydrolase Chain: D: PDB Molecule:sodium/potassium-transporting atpase subunit beta-1; PDBTitle: crystal structure of the sodium-potassium pump 22 d1htjf_ not modelled 9.1 15 Fold:Regulator of G-protein signaling, RGS Superfamily:Regulator of G-protein signaling, RGS Family:Regulator of G-protein signaling, RGS 23 c1htjF_ not modelled 9.1 15 PDB header:signaling protein Chain: F: PDB Molecule:kiaa0380; PDBTitle: structure of the rgs-like domain from pdz-rhogef 24 c3swfA_ not modelled 8.2 40 PDB header:transport protein Chain: A: PDB Molecule:cgmp-gated cation channel alpha-1; PDBTitle: cnga1 621-690 containing clz domain 25 d5ruba2 not modelled 7.3 25 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 26 c1jsuC_ not modelled 7.1 32 PDB header:complex (transferase/cyclin/inhibitor) Chain: C: PDB Molecule:p27; PDBTitle: p27(kip1)/cyclin a/cdk2 complex 27 c2w2hD_ not modelled 6.8 32 PDB header:rna-binding protein Chain: D: PDB Molecule:protein tat; PDBTitle: structural basis of transcription activation by the cyclin2 t1-tat-tar rna complex from eiav 28 d1wuua1 not modelled 6.8 10 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:GHMP Kinase, N-terminal domain 29 c3s93B_ not modelled 6.5 11 PDB header:transcription Chain: B: PDB Molecule:tudor domain-containing protein 5; PDBTitle: crystal structure of conserved motif in tdrd5 30 d1wmda1 not modelled 6.4 11 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Proprotein convertase P-domain 31 c2jp3A_ not modelled 6.4 36 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 32 c2ptmA_ not modelled 6.4 10 PDB header:transport protein Chain: A: PDB Molecule:hyperpolarization-activated (ih) channel; PDBTitle: structure and rearrangements in the carboxy-terminal region of spih2 channels 33 c2jo1A_ not modelled 6.3 24 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 34 d2o4ta1 not modelled 6.3 6 Fold:Left-handed superhelix Superfamily:BH3980-like Family:BH3980-like 35 d1o5ha_ not modelled 6.1 19 Fold:Methenyltetrahydrofolate cyclohydrolase-like Superfamily:Methenyltetrahydrofolate cyclohydrolase-like Family:Methenyltetrahydrofolate cyclohydrolase-like 36 d2ozla1 not modelled 6.0 20 Fold:Thiamin diphosphate-binding fold (THDP-binding) Superfamily:Thiamin diphosphate-binding fold (THDP-binding) Family:Branched-chain alpha-keto acid dehydrogenase PP module 37 c1y4cA_ not modelled 5.8 15 PDB header:de novo protein Chain: A: PDB Molecule:maltose binding protein fused with designed PDBTitle: designed helical protein fusion mbp 38 c2kncB_ not modelled 5.7 13 PDB header:cell adhesion Chain: B: PDB Molecule:integrin beta-3; PDBTitle: platelet integrin alfaiib-beta3 transmembrane-cytoplasmic2 heterocomplex 39 d1fftb2 not modelled 5.7 7 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 40 d1nkta1 not modelled 5.5 14 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 41 c1o7fA_ not modelled 5.5 17 PDB header:regulation Chain: A: PDB Molecule:camp-dependent rap1 guanine-nucleotide exchange PDBTitle: crystal structure of the regulatory domain of epac2 42 c2k6iA_ not modelled 5.5 34 PDB header:structural protein Chain: A: PDB Molecule:uncharacterized protein mj0223; PDBTitle: the domain features of the peripheral stalk subunit h of the2 methanogenic a1ao atp synthase and the nmr solution3 structure of h1-47 43 c2zxeB_ not modelled 5.4 21 PDB header:hydrolase/transport protein Chain: B: PDB Molecule:na+,k+-atpase beta subunit; PDBTitle: crystal structure of the sodium - potassium pump in the e2.2k+.pi2 state 44 d1ykwa2 not modelled 5.4 21 Fold:Ferredoxin-like Superfamily:RuBisCO, large subunit, small (N-terminal) domain Family:Ribulose 1,5-bisphosphate carboxylase-oxygenase 45 c3nngA_ not modelled 5.3 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the f5/8 type c domain of q5lfr2_bacfn protein2 from bacteroides fragilis. northeast structural genomics consortium3 target bfr258e 46 d1e3pa2 not modelled 5.3 39 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 47 c9paiB_ not modelled 5.3 15 PDB header:hydrolase inhibitor Chain: B: PDB Molecule:protein (plasminogen activator inhibitor-1) residues 365- PDBTitle: cleaved substrate variant of plasminogen activator inhibitor-1 48 c2axcA_ not modelled 5.3 18 PDB header:hydrolase Chain: A: PDB Molecule:colicin e7; PDBTitle: crystal structure of cole7 translocation domain 49 c3i24B_ not modelled 5.1 17 PDB header:hydrolase Chain: B: PDB Molecule:hit family hydrolase; PDBTitle: crystal structure of a hit family hydrolase protein from2 vibrio fischeri. northeast structural genomics consortium3 target id vfr176 50 d2hsga1 not modelled 5.1 21 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:GalR/LacI-like bacterial regulator

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