Secondary structure and disorder prediction

1

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10

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20

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30

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40

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50

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60

Sequence

M

T

I

K

N

K

M

L

L

G

A

L

L

L

V

T

S

A

A

W

A

A

P

A

T

A

G

S

T

N

T

S

G

I

S

K

Y

E

L

S

S

F

I

A

D

F

K

H

F

K

P

G

D

T

V

P

E

M

Y

R

Secondary structure

SS confidence

Disorder

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Disorder confidence

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70

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80

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90

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100

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110

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Sequence

T

D

E

Y

N

I

K

Q

W

Q

L

R

N

L

P

A

P

D

A

G

T

H

W

T

Y

M

G

G

A

Y

V

L

I

S

D

T

D

G

K

I

I

K

A

Y

D

G

E

I

F

Y

H

R

Secondary structure

SS confidence

Disorder

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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 2l1s chain A Region: 32 - 112 Aligned: 81 Modelled: 81 Confidence: 100.0% Identity: 74% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yohn; PDBTitle: yp_001336205.1 Phyre2 PDB 1rfo chain C Region: 76 - 95 Aligned: 20 Modelled: 20 Confidence: 31.0% Identity: 35% PDB header:viral protein Chain: C: PDB Molecule:whisker antigen control protein; PDBTitle: trimeric foldon of the t4 phagehead fibritin Phyre2 PDB 3ila chain G Region: 84 - 108 Aligned: 25 Modelled: 25 Confidence: 29.6% Identity: 20% PDB header:signaling protein Chain: G: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205) Phyre2 PDB 2fhz chain B domain 1 Region: 84 - 103 Aligned: 20 Modelled: 20 Confidence: 24.6% Identity: 25% Fold: Colicin D/E5 nuclease domain Superfamily: Colicin D/E5 nuclease domain Family: Colicin E5 nuclease domain Phyre2 PDB 2hkj chain A domain 2 Region: 68 - 100 Aligned: 25 Modelled: 33 Confidence: 24.5% Identity: 16% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: DNA gyrase/MutL, second domain Phyre2 PDB 3phz chain A Region: 81 - 107 Aligned: 27 Modelled: 27 Confidence: 23.7% Identity: 15% PDB header:sugar binding protein Chain: A: PDB Molecule:ricin b-related lectin; PDBTitle: crystal structure analysis of polyporus squamosus lectin bound to2 human-type influenza-binding epitope neu5aca2-6galb1-4glcnac Phyre2 PDB 1tf5 chain A domain 1 Region: 79 - 101 Aligned: 23 Modelled: 23 Confidence: 21.6% Identity: 13% Fold: Pre-protein crosslinking domain of SecA Superfamily: Pre-protein crosslinking domain of SecA Family: Pre-protein crosslinking domain of SecA Phyre2 PDB 1avy chain A Region: 76 - 95 Aligned: 20 Modelled: 20 Confidence: 17.9% Identity: 35% PDB header:coiled coil Chain: A: PDB Molecule:fibritin; PDBTitle: fibritin deletion mutant m (bacteriophage t4) Phyre2 PDB 1bf2 chain A domain 2 Region: 74 - 86 Aligned: 13 Modelled: 13 Confidence: 17.0% Identity: 54% Fold: Glycosyl hydrolase domain Superfamily: Glycosyl hydrolase domain Family: alpha-Amylases, C-terminal beta-sheet domain Phyre2 PDB 2otr chain A Region: 52 - 93 Aligned: 32 Modelled: 42 Confidence: 16.9% Identity: 6% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein hp0892; PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori Phyre2 PDB 1nkt chain A domain 1 Region: 79 - 101 Aligned: 23 Modelled: 23 Confidence: 16.9% Identity: 9% Fold: Pre-protein crosslinking domain of SecA Superfamily: Pre-protein crosslinking domain of SecA Family: Pre-protein crosslinking domain of SecA Phyre2 PDB 2zbk chain B Region: 68 - 100 Aligned: 25 Modelled: 33 Confidence: 14.4% Identity: 16% PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of an intact type ii dna topoisomerase:2 insights into dna transfer mechanisms Phyre2 PDB 2bps chain A Region: 69 - 104 Aligned: 36 Modelled: 36 Confidence: 12.9% Identity: 25% PDB header:ubiquitin Chain: A: PDB Molecule:yukd protein; PDBTitle: ubiquitin-like protein yukd of bacillus subtilis Phyre2 PDB 1z8m chain A domain 1 Region: 52 - 112 Aligned: 44 Modelled: 61 Confidence: 11.8% Identity: 11% Fold: RelE-like Superfamily: RelE-like Family: RelE-like Phyre2 PDB 1ox3 chain A Region: 76 - 95 Aligned: 20 Modelled: 20 Confidence: 10.9% Identity: 35% PDB header:chaperone Chain: A: PDB Molecule:fibritin; PDBTitle: crystal structure of mini-fibritin Phyre2 PDB 2z1c chain A domain 1 Region: 88 - 105 Aligned: 16 Modelled: 18 Confidence: 10.6% Identity: 31% Fold: OB-fold Superfamily: HupF/HypC-like Family: HupF/HypC-like Phyre2 PDB 1m7j chain A domain 2 Region: 73 - 108 Aligned: 33 Modelled: 36 Confidence: 10.4% Identity: 27% Fold: Composite domain of metallo-dependent hydrolases Superfamily: Composite domain of metallo-dependent hydrolases Family: D-aminoacylase Phyre2 PDB 2ot2 chain A domain 1 Region: 88 - 105 Aligned: 16 Modelled: 18 Confidence: 9.7% Identity: 25% Fold: OB-fold Superfamily: HupF/HypC-like Family: HupF/HypC-like Phyre2 PDB 1ggp chain B domain 1 Region: 81 - 107 Aligned: 26 Modelled: 27 Confidence: 9.4% Identity: 8% Fold: beta-Trefoil Superfamily: Ricin B-like lectins Family: Ricin B-like Phyre2 PDB 2rbi chain A Region: 70 - 110 Aligned: 40 Modelled: 41 Confidence: 9.3% Identity: 18% Fold: Microbial ribonucleases Superfamily: Microbial ribonucleases Family: Bacterial ribonucleases Phyre2 1 c2l1sA_ 2 c1rfoC_ 3 c3ilaG_ 4 d2fhzb1 5 d2hkja2 6 c3phzA_ 7 d1tf5a1 8 c1avyA_ 9 d1bf2a2 10 c2otrA_ 11 d1nkta1 12 c2zbkB_ 13 c2bpsA_ 14 d1z8ma1 15 c1ox3A_ 16 d2z1ca1 17 d1m7ja2 18 d2ot2a1 19 d1ggpb1 20 d2rbia_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38

Detailed template information

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

1 c2l1sA_ 100.0 74 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yohn; PDBTitle: yp_001336205.1 2 c1rfoC_ 31.0 35 PDB header:viral protein Chain: C: PDB Molecule:whisker antigen control protein; PDBTitle: trimeric foldon of the t4 phagehead fibritin 3 c3ilaG_ 29.6 20 PDB header:signaling protein Chain: G: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of rabbit ryanodine receptor 1 n-terminal domain (9-2 205) 4 d2fhzb1 24.6 25 Fold:Colicin D/E5 nuclease domain Superfamily:Colicin D/E5 nuclease domain Family:Colicin E5 nuclease domain 5 d2hkja2 24.5 16 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:DNA gyrase/MutL, second domain 6 c3phzA_ 23.7 15 PDB header:sugar binding protein Chain: A: PDB Molecule:ricin b-related lectin; PDBTitle: crystal structure analysis of polyporus squamosus lectin bound to2 human-type influenza-binding epitope neu5aca2-6galb1-4glcnac 7 d1tf5a1 21.6 13 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 8 c1avyA_ 17.9 35 PDB header:coiled coil Chain: A: PDB Molecule:fibritin; PDBTitle: fibritin deletion mutant m (bacteriophage t4) 9 d1bf2a2 17.0 54 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 10 c2otrA_ 16.9 6 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein hp0892; PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori 11 d1nkta1 16.9 9 Fold:Pre-protein crosslinking domain of SecA Superfamily:Pre-protein crosslinking domain of SecA Family:Pre-protein crosslinking domain of SecA 12 c2zbkB_ 14.4 16 PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of an intact type ii dna topoisomerase:2 insights into dna transfer mechanisms 13 c2bpsA_ 12.9 25 PDB header:ubiquitin Chain: A: PDB Molecule:yukd protein; PDBTitle: ubiquitin-like protein yukd of bacillus subtilis 14 d1z8ma1 11.8 11 Fold:RelE-like Superfamily:RelE-like Family:RelE-like 15 c1ox3A_ 10.9 35 PDB header:chaperone Chain: A: PDB Molecule:fibritin; PDBTitle: crystal structure of mini-fibritin 16 d2z1ca1 10.6 31 Fold:OB-fold Superfamily:HupF/HypC-like Family:HupF/HypC-like 17 d1m7ja2 10.4 27 Fold:Composite domain of metallo-dependent hydrolases Superfamily:Composite domain of metallo-dependent hydrolases Family:D-aminoacylase 18 d2ot2a1 9.7 25 Fold:OB-fold Superfamily:HupF/HypC-like Family:HupF/HypC-like 19 d1ggpb1 9.4 8 Fold:beta-Trefoil Superfamily:Ricin B-like lectins Family:Ricin B-like 20 d2rbia_ 9.3 18 Fold:Microbial ribonucleases Superfamily:Microbial ribonucleases Family:Bacterial ribonucleases 21 c1mx0D_ not modelled 9.3 9 PDB header:isomerase Chain: D: PDB Molecule:type ii dna topoisomerase vi subunit b; PDBTitle: structure of topoisomerase subunit 22 c1v1hB_ not modelled 9.0 29 PDB header:adenovirus Chain: B: PDB Molecule:fibritin, fiber protein; PDBTitle: adenovirus fibre shaft sequence n-terminally fused to the2 bacteriophage t4 fibritin foldon trimerisation motif with3 a short linker 23 c2c4bB_ not modelled 8.5 20 PDB header:fusion protein Chain: B: PDB Molecule:barnase mcoeeti fusion; PDBTitle: inhibitor cystine knot protein mcoeeti fused to the2 catalytically inactive barnase mutant h102a 24 d2jnaa1 not modelled 8.0 22 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 25 d1m0da_ not modelled 7.4 15 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:Endonuclease I (Holliday junction resolvase) 26 d2c4ba1 not modelled 7.3 18 Fold:Microbial ribonucleases Superfamily:Microbial ribonucleases Family:Bacterial ribonucleases 27 c3f8mA_ not modelled 6.9 30 PDB header:transcription Chain: A: PDB Molecule:gntr-family protein transcriptional regulator; PDBTitle: crystal structure of phnf from mycobacterium smegmatis 28 d1goua_ not modelled 6.9 18 Fold:Microbial ribonucleases Superfamily:Microbial ribonucleases Family:Bacterial ribonucleases 29 d2f2fa1 not modelled 6.5 19 Fold:beta-Trefoil Superfamily:Ricin B-like lectins Family:Ricin B-like 30 d1upsa2 not modelled 6.4 19 Fold:beta-Trefoil Superfamily:Ricin B-like lectins Family:GlcNAc-alpha-1,4-Gal-releasing endo-beta-galactosidase, GngC, C-terminal domain 31 c1xk5A_ not modelled 5.9 56 PDB header:transport protein Chain: A: PDB Molecule:snurportin-1; PDBTitle: crystal structure of the m3g-cap-binding domain of2 snurportin1 in complex with a m3gpppg-cap dinucleotide 32 c3gjxE_ not modelled 5.6 56 PDB header:protein transport Chain: E: PDB Molecule:snurportin-1; PDBTitle: crystal structure of the nuclear export complex crm1-2 snurportin1-rangtp 33 c3tqnC_ not modelled 5.3 18 PDB header:transcription Chain: C: PDB Molecule:transcriptional regulator, gntr family; PDBTitle: structure of the transcriptional regulator of the gntr family, from2 coxiella burnetii. 34 c3bwgA_ not modelled 5.2 27 PDB header:transcription regulator Chain: A: PDB Molecule:uncharacterized hth-type transcriptional regulator yydk; PDBTitle: the crystal structure of possible transcriptional regulator yydk from2 bacillus subtilis subsp. subtilis str. 168 35 d2noca1 not modelled 5.2 41 Fold:Dodecin subunit-like Superfamily:YdgH-like Family:YdgH-like 36 c2q2eB_ not modelled 5.2 31 PDB header:isomerase Chain: B: PDB Molecule:type 2 dna topoisomerase 6 subunit b; PDBTitle: crystal structure of the topoisomerase vi holoenzyme from2 methanosarcina mazei 37 c2ihoA_ not modelled 5.1 21 PDB header:sugar binding protein Chain: A: PDB Molecule:lectin; PDBTitle: crystal structure of moa, a lectin from the mushroom marasmius oreades2 in complex with the trisaccharide gal(1,3)gal(1,4)glcnac 38 c3gb8B_ not modelled 5.1 56 PDB header:transport protein Chain: B: PDB Molecule:snurportin-1; PDBTitle: crystal structure of crm1/snurportin-1 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

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