Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	Q	E	Y	T	V	E	Q	L	N	H	G	R	K	V	Y	D	F	M	R	W	D	Y	W	A	F	G	I	S	G	L	L	L	I	A	A	I	V	I	M	G	V	R	G	F	N	W	G	L	D	F	T	G	G	T	V	I	E	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	L	E	K	P	A	E	I	D	V	M	R	D	A	L	Q	K	A	G	F	E	E	P	M	L	Q	N	F	G	S	S	H	D	I	M	V	R	M	P	P	A	E	G	E	T	G	G	Q	V	L	G	S	Q	V	L	K	V	I	N	E
Secondary structure
SS confidence
Disorder							?												?	?	?	?	?	?					?		?	?	?							?	?	?	?	?	?	?														?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		S	T	N	Q	N	A	A	V	K	R	I	E	F	V	G	P	S	V	G	A	D	L	A	Q	T	G	A	M	A	L	M	A	A	L	L	S	I	L	V	Y	V	G	F	R	F	E	W	R	L	A	A	G	V	V	I	A	L	A	H	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?						?	?	?	?	?																															?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	I	I	T	L	G	I	L	S	L	F	H	I	E	I	D	L	T	I	V	A	S	L	M	S	V	I	G	Y	S	L	N	D	S	I	V	V	S	D	R	I	R	E	N	F	R	K	I	R	R	G	T	P	Y	E	I	F	N	V	S
Secondary structure
SS confidence
Disorder																																																?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	T	Q	T	L	H	R	T	L	I	T	S	G	T	T	L	M	V	I	L	M	L	Y	L	F	G	G	P	V	L	E	G	F	S	L	T	M	L	I	G	V	S	I	G	T	A	S	S	I	Y	V	A	S	A	L	A	L	K	L	G
Secondary structure
SS confidence
Disorder																												?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	310	.	.	.	.	.	.	.	.	.	320	.	.	.
Sequence		M	K	R	E	H	M	L	Q	Q	K	V	E	K	E	G	A	D	Q	P	S	I	L	P
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 3aqp chain B Region: 11 - 302 Aligned: 285 Modelled: 292 Confidence: 100.0% Identity: 37% PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus Phyre2 PDB 3k07 chain A Region: 35 - 300 Aligned: 264 Modelled: 266 Confidence: 100.0% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa Phyre2 PDB 1oy8 chain A Region: 81 - 306 Aligned: 212 Modelled: 215 Confidence: 100.0% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:acriflavine resistance protein b; PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump Phyre2 PDB 1iwg chain A domain 8 Region: 104 - 306 Aligned: 201 Modelled: 203 Confidence: 99.9% Identity: 14% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 1iwg chain A domain 7 Region: 103 - 301 Aligned: 195 Modelled: 199 Confidence: 99.9% Identity: 15% Fold: Multidrug efflux transporter AcrB transmembrane domain Superfamily: Multidrug efflux transporter AcrB transmembrane domain Family: Multidrug efflux transporter AcrB transmembrane domain Phyre2 PDB 2rrn chain A Region: 45 - 135 Aligned: 84 Modelled: 91 Confidence: 99.1% Identity: 30% PDB header:protein transport Chain: A: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: solution structure of secdf periplasmic domain p4 Phyre2 PDB 2jo1 chain A Region: 268 - 323 Aligned: 54 Modelled: 56 Confidence: 28.9% Identity: 15% PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles Phyre2 PDB 1je3 chain A Region: 51 - 97 Aligned: 47 Modelled: 47 Confidence: 27.5% Identity: 15% Fold: IF3-like Superfamily: SirA-like Family: SirA-like Phyre2 PDB 1iwg chain A domain 4 Region: 53 - 130 Aligned: 76 Modelled: 78 Confidence: 22.3% Identity: 12% Fold: Ferredoxin-like Superfamily: Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains Family: Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains Phyre2 PDB 1in0 chain A domain 1 Region: 43 - 77 Aligned: 35 Modelled: 35 Confidence: 18.6% Identity: 20% Fold: Ferredoxin-like Superfamily: YajQ-like Family: YajQ-like Phyre2 PDB 2axt chain E domain 1 Region: 13 - 50 Aligned: 38 Modelled: 38 Confidence: 16.0% Identity: 16% Fold: Single transmembrane helix Superfamily: Cytochrome b559 subunits Family: Cytochrome b559 subunits Phyre2 PDB 1dcj chain A Region: 51 - 97 Aligned: 47 Modelled: 47 Confidence: 15.8% Identity: 15% Fold: IF3-like Superfamily: SirA-like Family: SirA-like Phyre2 PDB 1m56 chain D Region: 9 - 40 Aligned: 32 Modelled: 32 Confidence: 15.2% Identity: 22% Fold: Single transmembrane helix Superfamily: Bacterial aa3 type cytochrome c oxidase subunit IV Family: Bacterial aa3 type cytochrome c oxidase subunit IV Phyre2 PDB 1pav chain A Region: 51 - 97 Aligned: 47 Modelled: 47 Confidence: 14.1% Identity: 17% Fold: IF3-like Superfamily: SirA-like Family: SirA-like Phyre2 PDB 2gcf chain A Region: 50 - 87 Aligned: 37 Modelled: 38 Confidence: 14.1% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:cation-transporting atpase pacs; PDBTitle: solution structure of the n-terminal domain of the coppper(i) atpase2 pacs in its apo form Phyre2 PDB 2jp3 chain A Region: 268 - 323 Aligned: 54 Modelled: 56 Confidence: 13.2% Identity: 17% 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 1yg0 chain A Region: 49 - 81 Aligned: 32 Modelled: 33 Confidence: 13.1% Identity: 25% PDB header:metal transport Chain: A: PDB Molecule:cop associated protein; PDBTitle: solution structure of apo-copp from helicobacter pylori Phyre2 PDB 2ggp chain B domain 1 Region: 50 - 87 Aligned: 37 Modelled: 38 Confidence: 12.2% Identity: 14% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 1qle chain D Region: 9 - 36 Aligned: 28 Modelled: 28 Confidence: 10.7% Identity: 18% Fold: Single transmembrane helix Superfamily: Bacterial aa3 type cytochrome c oxidase subunit IV Family: Bacterial aa3 type cytochrome c oxidase subunit IV Phyre2 PDB 3hz7 chain A Region: 54 - 97 Aligned: 44 Modelled: 44 Confidence: 9.9% Identity: 9% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the sira-like protein (dsy4693) from2 desulfitobacterium hafniense, northeast structural genomics3 consortium target dhr2a Phyre2 1 c3aqpB_ 2 c3k07A_ 3 c1oy8A_ 4 d1iwga8 5 d1iwga7 6 c2rrnA_ 7 c2jo1A_ 8 d1je3a_ 9 d1iwga4 10 d1in0a1 11 d2axte1 12 d1dcja_ 13 d1m56d_ 14 d1pava_ 15 c2gcfA_ 16 c2jp3A_ 17 c1yg0A_ 18 d2ggpb1 19 d1qled_ 20 c3hz7A_ 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 51 52 53 54 55 56 57 58 59 60

Detailed template information

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

1 c3aqpB_ 100.0 37 PDB header:membrane protein Chain: B: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: crystal structure of secdf, a translocon-associated membrane protein,2 from thermus thrmophilus 2 c3k07A_ 100.0 13 PDB header:transport protein Chain: A: PDB Molecule:cation efflux system protein cusa; PDBTitle: crystal structure of cusa 3 c1oy8A_ 100.0 14 PDB header:membrane protein Chain: A: PDB Molecule:acriflavine resistance protein b; PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump 4 d1iwga8 99.9 14 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 5 d1iwga7 99.9 15 Fold:Multidrug efflux transporter AcrB transmembrane domain Superfamily:Multidrug efflux transporter AcrB transmembrane domain Family:Multidrug efflux transporter AcrB transmembrane domain 6 c2rrnA_ 99.1 30 PDB header:protein transport Chain: A: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: solution structure of secdf periplasmic domain p4 7 c2jo1A_ 28.9 15 PDB header:hydrolase regulator Chain: A: PDB Molecule:phospholemman; PDBTitle: structure of the na,k-atpase regulatory protein fxyd1 in2 micelles 8 d1je3a_ 27.5 15 Fold:IF3-like Superfamily:SirA-like Family:SirA-like 9 d1iwga4 22.3 12 Fold:Ferredoxin-like Superfamily:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains Family:Multidrug efflux transporter AcrB pore domain; PN1, PN2, PC1 and PC2 subdomains 10 d1in0a1 18.6 20 Fold:Ferredoxin-like Superfamily:YajQ-like Family:YajQ-like 11 d2axte1 16.0 16 Fold:Single transmembrane helix Superfamily:Cytochrome b559 subunits Family:Cytochrome b559 subunits 12 d1dcja_ 15.8 15 Fold:IF3-like Superfamily:SirA-like Family:SirA-like 13 d1m56d_ 15.2 22 Fold:Single transmembrane helix Superfamily:Bacterial aa3 type cytochrome c oxidase subunit IV Family:Bacterial aa3 type cytochrome c oxidase subunit IV 14 d1pava_ 14.1 17 Fold:IF3-like Superfamily:SirA-like Family:SirA-like 15 c2gcfA_ 14.1 16 PDB header:hydrolase Chain: A: PDB Molecule:cation-transporting atpase pacs; PDBTitle: solution structure of the n-terminal domain of the coppper(i) atpase2 pacs in its apo form 16 c2jp3A_ 13.2 17 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 17 c1yg0A_ 13.1 25 PDB header:metal transport Chain: A: PDB Molecule:cop associated protein; PDBTitle: solution structure of apo-copp from helicobacter pylori 18 d2ggpb1 12.2 14 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 19 d1qled_ 10.7 18 Fold:Single transmembrane helix Superfamily:Bacterial aa3 type cytochrome c oxidase subunit IV Family:Bacterial aa3 type cytochrome c oxidase subunit IV 20 c3hz7A_ 9.9 9 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the sira-like protein (dsy4693) from2 desulfitobacterium hafniense, northeast structural genomics3 consortium target dhr2a 21 c2kt2A_ not modelled 9.3 13 PDB header:oxidoreductase Chain: A: PDB Molecule:mercuric reductase; PDBTitle: structure of nmera, the n-terminal hma domain of tn501 mercuric2 reductase 22 c2zxeG_ not modelled 9.2 21 PDB header:hydrolase/transport protein Chain: G: PDB Molecule:phospholemman-like protein; PDBTitle: crystal structure of the sodium - potassium pump in the e2.2k+.pi2 state 23 c1ciiA_ not modelled 9.1 21 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 24 d1s6ua_ not modelled 8.7 10 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 25 d1cpza_ not modelled 8.4 8 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 26 c1yjrA_ not modelled 8.3 8 PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the apo form of the sixth soluble2 domain a69p mutant of menkes protein 27 d1osda_ not modelled 8.2 14 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 28 d1o75a2 not modelled 8.1 33 Fold:Immunoglobulin-like beta-sandwich Superfamily:Tp47 lipoprotein, middle and C-terminal domains Family:Tp47 lipoprotein, middle and C-terminal domains 29 c3dxsX_ not modelled 8.1 13 PDB header:hydrolase Chain: X: PDB Molecule:copper-transporting atpase ran1; PDBTitle: crystal structure of a copper binding domain from hma7, a p-2 type atpase 30 d1jdqa_ not modelled 7.6 18 Fold:IF3-like Superfamily:SirA-like Family:SirA-like 31 c1in0B_ not modelled 7.5 20 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:yajq protein; PDBTitle: yajq protein (hi1034) 32 d1pgya_ not modelled 7.0 10 Fold:RuvA C-terminal domain-like Superfamily:UBA-like Family:UBA domain 33 c3f1jA_ not modelled 7.0 45 PDB header:viral protein Chain: A: PDB Molecule:matrix protein; PDBTitle: crystal structure of the borna disease virus matrix protein2 (bdv-m) reveals rna binding properties 34 c2k2pA_ not modelled 6.7 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1203; PDBTitle: solution nmr structure of protein atu1203 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att10, ontario center for structural proteomics target atc1183 35 c2yvxD_ not modelled 6.6 14 PDB header:transport protein Chain: D: PDB Molecule:mg2+ transporter mgte; PDBTitle: crystal structure of magnesium transporter mgte 36 c1y3kA_ not modelled 6.5 9 PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the apo form of the fifth domain of2 menkes protein 37 c3ipdB_ not modelled 6.4 20 PDB header:exocytosis Chain: B: PDB Molecule:syntaxin-1a; PDBTitle: helical extension of the neuronal snare complex into the2 membrane, spacegroup i 21 21 21 38 c3n23E_ not modelled 6.4 20 PDB header:hydrolase Chain: E: PDB Molecule:na+/k+ atpase gamma subunit transcript variant a; PDBTitle: crystal structure of the high affinity complex between ouabain and the2 e2p form of the sodium-potassium pump 39 c2mltA_ not modelled 6.4 29 PDB header:toxin (hemolytic polypeptide) Chain: A: PDB Molecule:melittin; PDBTitle: melittin 40 c2mltB_ not modelled 6.4 29 PDB header:toxin (hemolytic polypeptide) Chain: B: PDB Molecule:melittin; PDBTitle: melittin 41 c2bbjB_ not modelled 6.3 11 PDB header:metal transport/membrane protein Chain: B: PDB Molecule:divalent cation transport-related protein; PDBTitle: crystal structure of the cora mg2+ transporter 42 d1afia_ not modelled 6.2 14 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 43 d1pqua2 not modelled 6.1 12 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 44 c3fewX_ not modelled 6.0 6 PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain 45 d1cola_ not modelled 6.0 7 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 46 c3g5uB_ not modelled 6.0 13 PDB header:membrane protein Chain: B: PDB Molecule:multidrug resistance protein 1a; PDBTitle: structure of p-glycoprotein reveals a molecular basis for2 poly-specific drug binding 47 d2qifa1 not modelled 5.9 16 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 48 c1wwuA_ not modelled 5.9 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein flj21935; PDBTitle: solution structure of the sam_pnt domain of human protein2 flj21935 49 c3lk2T_ not modelled 5.9 26 PDB header:protein binding Chain: T: PDB Molecule:leucine-rich repeat-containing protein 16a; PDBTitle: crystal structure of capz bound to the uncapping motif from carmil 50 d1t4ba2 not modelled 5.7 18 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 51 c2l3mA_ not modelled 5.6 13 PDB header:metal binding protein Chain: A: PDB Molecule:copper-ion-binding protein; PDBTitle: solution structure of the putative copper-ion-binding protein from2 bacillus anthracis str. ames 52 c1w8xP_ not modelled 5.6 25 PDB header:virus Chain: P: PDB Molecule:protein p16; PDBTitle: structural analysis of prd1 53 c1v06A_ not modelled 5.5 23 PDB header:dna-binding protein Chain: A: PDB Molecule:hmg box-containing protein 1; PDBTitle: axh domain of the transcription factor hbp1 from m.musculus 54 c2ofhX_ not modelled 5.5 9 PDB header:hydrolase, membrane protein Chain: X: PDB Molecule:zinc-transporting atpase; PDBTitle: solution structure of the n-terminal domain of the zinc(ii) atpase2 ziaa in its apo form 55 d1mxaa1 not modelled 5.5 15 Fold:S-adenosylmethionine synthetase Superfamily:S-adenosylmethionine synthetase Family:S-adenosylmethionine synthetase 56 d1kvja_ not modelled 5.3 16 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 57 d1q7ha2 not modelled 5.2 37 Fold:Cystatin-like Superfamily:Pre-PUA domain Family:Hypothetical protein Ta1423, N-terminal domain 58 c1bh1A_ not modelled 5.1 31 PDB header:toxin Chain: A: PDB Molecule:melittin; PDBTitle: structural studies of d-pro melittin, nmr, 20 structures 59 d2gz1a2 not modelled 5.1 18 Fold:FwdE/GAPDH domain-like Superfamily:Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain Family:GAPDH-like 60 c2rmlA_ not modelled 5.1 23 PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting p-type atpase copa; PDBTitle: solution structure of the n-terminal soluble domains of2 bacillus subtilis copa

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