Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	K	Q	R	G	F	T	L	I	E	L	M	V	V	I	G	I	I	A	I	L	S	A	I	G	I	P	A	Y	Q	N	Y	L	R	K	A	A	L	T	D	M	L	Q	T	F	V	P	Y	R	T	A	V	E	L	C	A	L	E	H
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		G	G	L	D	T	C	D	G	G	S	N	G	I	P	S	P	T	T	T	R	Y	V	S	A	M	S	V	A	K	G	V	V	S	L	T	G	Q	E	S	L	N	G	L	S	V	V	M	T	P	G	W	D	N	A	N	G	V	T	G	W
Secondary structure
SS confidence
Disorder																		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.
Sequence		T	R	N	C	N	I	Q	S	D	S	A	L	Q	Q	A	C	E	D	V	F	R	F	D	D	A	N
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 3sok chain B Region: 7 - 138 Aligned: 129 Modelled: 132 Confidence: 99.9% Identity: 22% PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima Phyre2 PDB 1oqw chain A Region: 7 - 137 Aligned: 129 Modelled: 131 Confidence: 99.9% Identity: 27% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 2pil chain A Region: 8 - 141 Aligned: 134 Modelled: 134 Confidence: 99.9% Identity: 30% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 1qve chain A Region: 33 - 144 Aligned: 110 Modelled: 112 Confidence: 99.0% Identity: 21% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 3jyz chain A Region: 30 - 137 Aligned: 108 Modelled: 108 Confidence: 99.0% Identity: 18% PDB header:structural protein Chain: A: PDB Molecule:type iv pilin structural subunit; PDBTitle: crystal structure of pseudomonas aeruginosa (strain:2 pa110594) typeiv pilin in space group p41212 Phyre2 PDB 1x6z chain A domain 1 Region: 33 - 137 Aligned: 100 Modelled: 105 Confidence: 98.6% Identity: 17% Fold: Pili subunits Superfamily: Pili subunits Family: Pilin Phyre2 PDB 3fu1 chain B Region: 33 - 80 Aligned: 48 Modelled: 48 Confidence: 93.9% Identity: 19% 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 1t92 chain A Region: 33 - 79 Aligned: 47 Modelled: 47 Confidence: 93.7% Identity: 17% Fold: Pili subunits Superfamily: Pili subunits Family: Pseudopilin Phyre2 PDB 2kep chain A Region: 36 - 69 Aligned: 34 Modelled: 34 Confidence: 91.9% Identity: 15% 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 1btt chain A Region: 11 - 26 Aligned: 16 Modelled: 16 Confidence: 41.7% Identity: 31% PDB header:transmembrane protein Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 Phyre2 PDB 1bts chain A Region: 11 - 25 Aligned: 15 Modelled: 15 Confidence: 41.0% Identity: 33% PDB header:transmembrane protein Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 Phyre2 PDB 4a18 chain U Region: 5 - 15 Aligned: 11 Modelled: 11 Confidence: 39.6% Identity: 64% PDB header:ribosome Chain: U: PDB Molecule:rpl13; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 Phyre2 PDB 3u5e chain L Region: 5 - 15 Aligned: 11 Modelled: 11 Confidence: 38.5% Identity: 55% PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l13-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution Phyre2 PDB 3ehb chain B domain 2 Region: 8 - 33 Aligned: 26 Modelled: 26 Confidence: 36.4% Identity: 31% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 1v54 chain B domain 2 Region: 2 - 31 Aligned: 30 Modelled: 30 Confidence: 29.5% Identity: 20% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 1fft chain B domain 2 Region: 3 - 33 Aligned: 31 Modelled: 31 Confidence: 28.9% Identity: 13% Fold: Transmembrane helix hairpin Superfamily: Cytochrome c oxidase subunit II-like, transmembrane region Family: Cytochrome c oxidase subunit II-like, transmembrane region Phyre2 PDB 3soj chain A Region: 35 - 140 Aligned: 101 Modelled: 106 Confidence: 28.3% Identity: 17% PDB header:cell adhesion Chain: A: PDB Molecule:pile; PDBTitle: francisella tularensis pilin pile Phyre2 PDB 2kxe chain A Region: 7 - 13 Aligned: 7 Modelled: 7 Confidence: 14.7% Identity: 71% PDB header:transferase Chain: A: PDB Molecule:dna polymerase ii small subunit; PDBTitle: n-terminal domain of the dp1 subunit of an archaeal d-family dna2 polymerase Phyre2 PDB 1afo chain B Region: 11 - 25 Aligned: 15 Modelled: 15 Confidence: 14.7% Identity: 13% PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures Phyre2 PDB 1r89 chain A domain 1 Region: 3 - 15 Aligned: 13 Modelled: 13 Confidence: 14.2% Identity: 62% Fold: PAP/OAS1 substrate-binding domain Superfamily: PAP/OAS1 substrate-binding domain Family: Archaeal tRNA CCA-adding enzyme substrate-binding domain Phyre2 1 c3sokB_ 2 d1oqwa_ 3 d2pila_ 4 d1qvea_ 5 c3jyzA_ 6 d1x6za1 7 c3fu1B_ 8 d1t92a_ 9 c2kepA_ 10 c1bttA_ 11 c1btsA_ 12 c4a18U_ 13 c3u5eL_ 14 d3ehbb2 15 d1v54b2 16 d1fftb2 17 c3sojA_ 18 c2kxeA_ 19 c1afoB_ 20 d1r89a1 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

Detailed template information

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

1 c3sokB_ 99.9 22 PDB header:cell adhesion Chain: B: PDB Molecule:fimbrial protein; PDBTitle: dichelobacter nodosus pilin fima 2 d1oqwa_ 99.9 27 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 3 d2pila_ 99.9 30 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 4 d1qvea_ 99.0 21 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 5 c3jyzA_ 99.0 18 PDB header:structural protein Chain: A: PDB Molecule:type iv pilin structural subunit; PDBTitle: crystal structure of pseudomonas aeruginosa (strain:2 pa110594) typeiv pilin in space group p41212 6 d1x6za1 98.6 17 Fold:Pili subunits Superfamily:Pili subunits Family:Pilin 7 c3fu1B_ 93.9 19 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 8 d1t92a_ 93.7 17 Fold:Pili subunits Superfamily:Pili subunits Family:Pseudopilin 9 c2kepA_ 91.9 15 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 10 c1bttA_ 41.7 31 PDB header:transmembrane protein Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 11 c1btsA_ 41.0 33 PDB header:transmembrane protein Chain: A: PDB Molecule:band 3 anion transport protein; PDBTitle: the solution structures of the first and second2 transmembrane-spanning segments of band 3 12 c4a18U_ 39.6 64 PDB header:ribosome Chain: U: PDB Molecule:rpl13; PDBTitle: t.thermophila 60s ribosomal subunit in complex with initiation2 factor 6. this file contains 26s rrna and proteins of molecule 1 13 c3u5eL_ 38.5 55 PDB header:ribosome Chain: L: PDB Molecule:60s ribosomal protein l13-a; PDBTitle: the structure of the eukaryotic ribosome at 3.0 resolution 14 d3ehbb2 36.4 31 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 15 d1v54b2 29.5 20 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 16 d1fftb2 28.9 13 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 17 c3sojA_ 28.3 17 PDB header:cell adhesion Chain: A: PDB Molecule:pile; PDBTitle: francisella tularensis pilin pile 18 c2kxeA_ 14.7 71 PDB header:transferase Chain: A: PDB Molecule:dna polymerase ii small subunit; PDBTitle: n-terminal domain of the dp1 subunit of an archaeal d-family dna2 polymerase 19 c1afoB_ 14.7 13 PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures 20 d1r89a1 14.2 62 Fold:PAP/OAS1 substrate-binding domain Superfamily:PAP/OAS1 substrate-binding domain Family:Archaeal tRNA CCA-adding enzyme substrate-binding domain 21 c2wsfG_ not modelled 13.9 25 PDB header:photosynthesis Chain: G: PDB Molecule:photosystem i reaction center subunit v, PDBTitle: improved model of plant photosystem i 22 c1xmeB_ not modelled 13.2 13 PDB header:oxidoreductase Chain: B: PDB Molecule:cytochrome c oxidase polypeptide ii; PDBTitle: structure of recombinant cytochrome ba3 oxidase from thermus2 thermophilus 23 c1qleB_ not modelled 13.2 25 PDB header:oxidoreductase/immune system Chain: B: PDB Molecule:cytochrome c oxidase polypeptide ii; PDBTitle: cryo-structure of the paracoccus denitrificans four-subunit2 cytochrome c oxidase in the completely oxidized state3 complexed with an antibody fv fragment 24 c1ar1B_ not modelled 13.2 25 PDB header:complex (oxidoreductase/antibody) Chain: B: PDB Molecule:cytochrome c oxidase; PDBTitle: structure at 2.7 angstrom resolution of the paracoccus2 denitrificans two-subunit cytochrome c oxidase complexed3 with an antibody fv fragment 25 d3dtub2 not modelled 12.8 25 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 26 c2kadB_ not modelled 11.8 47 PDB header:membrane protein Chain: B: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 27 c2kadC_ not modelled 11.8 47 PDB header:membrane protein Chain: C: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 28 c2kadD_ not modelled 11.8 47 PDB header:membrane protein Chain: D: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 29 c2kadA_ not modelled 11.8 47 PDB header:membrane protein Chain: A: PDB Molecule:transmembrane peptide of matrix protein 2; PDBTitle: magic-angle-spinning solid-state nmr structure of influenza2 a m2 transmembrane domain 30 d1m56d_ not modelled 11.2 21 Fold:Single transmembrane helix Superfamily:Bacterial aa3 type cytochrome c oxidase subunit IV Family:Bacterial aa3 type cytochrome c oxidase subunit IV 31 d1r3jc_ not modelled 10.6 9 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 32 c2o01G_ not modelled 10.2 25 PDB header:photosynthesis Chain: G: PDB Molecule:photosystem i reaction center subunit v, PDBTitle: the structure of a plant photosystem i supercomplex at 3.42 angstrom resolution 33 c2ljcA_ not modelled 10.0 47 PDB header:transport protein/inhibitor Chain: A: PDB Molecule:m2 protein, bm2 protein chimera; PDBTitle: structure of the influenza am2-bm2 chimeric channel bound to2 rimantadine 34 d1oqva_ not modelled 9.7 15 Fold:Pili subunits Superfamily:Pili subunits Family:TcpA-like pilin 35 d1tcra2 not modelled 9.4 29 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:C1 set domains (antibody constant domain-like) 36 c2kb1A_ not modelled 8.1 12 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 37 c2wscK_ not modelled 7.0 50 PDB header:photosynthesis Chain: K: PDB Molecule:photosystem i reaction center subunit psak, PDBTitle: improved model of plant photosystem i 38 d1az3a_ not modelled 6.9 38 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Restriction endonuclease EcoRV 39 c2vvyC_ not modelled 6.6 14 PDB header:viral protein Chain: C: PDB Molecule:protein b15; PDBTitle: structure of vaccinia virus protein b14 40 c1mp6A_ not modelled 6.6 47 PDB header:membrane protein Chain: A: PDB Molecule:matrix protein m2; PDBTitle: structure of the transmembrane region of the m2 protein h+2 channel by solid state nmr spectroscopy 41 c1nyjB_ not modelled 6.6 47 PDB header:viral protein Chain: B: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 42 c2kqtA_ not modelled 6.6 47 PDB header:transport protein Chain: A: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 43 c2kqtC_ not modelled 6.6 47 PDB header:transport protein Chain: C: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 44 c1nyjC_ not modelled 6.6 47 PDB header:viral protein Chain: C: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 45 c2kqtB_ not modelled 6.6 47 PDB header:transport protein Chain: B: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 46 c1nyjD_ not modelled 6.6 47 PDB header:viral protein Chain: D: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 47 c1nyjA_ not modelled 6.6 47 PDB header:viral protein Chain: A: PDB Molecule:matrix protein m2; PDBTitle: the closed state structure of m2 protein h+ channel by2 solid state nmr spectroscopy 48 c2kqtD_ not modelled 6.6 47 PDB header:transport protein Chain: D: PDB Molecule:m2 protein; PDBTitle: solid-state nmr structure of the m2 transmembrane peptide of the2 influenza a virus in dmpc lipid bilayers bound to deuterated3 amantadine 49 c2j7aC_ not modelled 6.4 7 PDB header:oxidoreductase Chain: C: PDB Molecule:cytochrome c quinol dehydrogenase nrfh; PDBTitle: crystal structure of cytochrome c nitrite reductase nrfha2 complex from desulfovibrio vulgaris 50 c2dcoA_ not modelled 6.4 25 PDB header:membrane protein Chain: A: PDB Molecule:s1p4 first extracellular loop peptidomimetic; PDBTitle: s1p4 first extracellular loop peptidomimetic 51 d2a9ha1 not modelled 6.3 10 Fold:Voltage-gated potassium channels Superfamily:Voltage-gated potassium channels Family:Voltage-gated potassium channels 52 c3lw5K_ not modelled 6.1 26 PDB header:photosynthesis Chain: K: PDB Molecule:photosystem i reaction center subunit x psak; PDBTitle: improved model of plant photosystem i 53 c3f5dA_ not modelled 6.0 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ydea; PDBTitle: crystal structure of a protein of unknown function from2 bacillus subtilis 54 c1spfA_ not modelled 5.8 25 PDB header:lipoprotein(surface film) Chain: A: PDB Molecule:pulmonary surfactant-associated polypeptide c; PDBTitle: the nmr structure of the pulmonary surfactant-associated2 polypeptide sp-c in an apolar solvent contains a valyl-3 rich alpha-helix 55 c1tiiC_ not modelled 5.7 50 PDB header:enterotoxin Chain: C: PDB Molecule:heat labile enterotoxin type iib; PDBTitle: escherichia coli heat labile enterotoxin type iib 56 d1xmeb2 not modelled 5.5 50 Fold:Transmembrane helix hairpin Superfamily:Cytochrome c oxidase subunit II-like, transmembrane region Family:Cytochrome c oxidase subunit II-like, transmembrane region 57 c1b22A_ not modelled 5.4 20 PDB header:dna binding protein Chain: A: PDB Molecule:dna repair protein rad51; PDBTitle: rad51 (n-terminal domain) 58 d1b22a_ not modelled 5.4 20 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:DNA repair protein Rad51, N-terminal domain 59 d2ab0a1 not modelled 5.3 20 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI

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