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

R

T

L

L

A

I

L

L

F

P

L

L

V

Q

A

A

G

E

G

M

W

Q

A

S

S

V

G

I

T

L

N

H

R

G

E

S

M

S

S

A

P

L

S

T

R

Q

P

A

S

G

L

M

T

L

V

A

W

R

Y

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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120

Sequence

Q

L

I

G

P

T

P

S

G

L

R

V

R

L

C

S

Q

S

R

C

V

E

L

E

G

Q

S

G

T

T

V

A

F

S

G

I

A

A

A

E

P

L

R

F

I

W

E

V

P

G

G

G

R

L

I

P

P

L

K

V

Secondary structure

SS confidence

Disorder

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Disorder confidence

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130

Sequence

Q

R

N

E

V

I

V

N

Y

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 1jpy chain A Region: 58 - 127 Aligned: 66 Modelled: 70 Confidence: 51.2% Identity: 15% Fold: Cystine-knot cytokines Superfamily: Cystine-knot cytokines Family: Interleukin 17F, IL-17F Phyre2 PDB 2z0b chain B Region: 59 - 128 Aligned: 68 Modelled: 69 Confidence: 39.7% Identity: 21% PDB header:hydrolase Chain: B: PDB Molecule:putative glycerophosphodiester phosphodiesterase 5; PDBTitle: crystal structure of cbm20 domain of human putative2 glycerophosphodiester phosphodiesterase 5 (kiaa1434) Phyre2 PDB 2kv5 chain A Region: 1 - 14 Aligned: 14 Modelled: 14 Confidence: 25.5% Identity: 29% PDB header:toxin Chain: A: PDB Molecule:putative uncharacterized protein rnai; PDBTitle: solution structure of the par toxin fst in dpc micelles Phyre2 PDB 2wsk chain A Region: 45 - 111 Aligned: 65 Modelled: 67 Confidence: 14.8% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:glycogen debranching enzyme; PDBTitle: crystal structure of glycogen debranching enzyme glgx from2 escherichia coli k-12 Phyre2 PDB 2zkm chain X domain 4 Region: 79 - 89 Aligned: 11 Modelled: 11 Confidence: 13.7% Identity: 55% Fold: TIM beta/alpha-barrel Superfamily: PLC-like phosphodiesterases Family: Mammalian PLC Phyre2 PDB 1qas chain A domain 3 Region: 79 - 89 Aligned: 11 Modelled: 11 Confidence: 13.5% Identity: 45% Fold: TIM beta/alpha-barrel Superfamily: PLC-like phosphodiesterases Family: Mammalian PLC Phyre2 PDB 1cyg chain A domain 2 Region: 55 - 130 Aligned: 76 Modelled: 76 Confidence: 13.2% Identity: 14% Fold: Prealbumin-like Superfamily: Starch-binding domain-like Family: Starch-binding domain Phyre2 PDB 1kpt chain A Region: 114 - 129 Aligned: 16 Modelled: 16 Confidence: 13.0% Identity: 38% Fold: Yeast killer toxins Superfamily: Yeast killer toxins Family: Virally encoded KP4 toxin Phyre2 PDB 3cdz chain A Region: 83 - 112 Aligned: 30 Modelled: 30 Confidence: 11.2% Identity: 10% PDB header:blood clotting Chain: A: PDB Molecule:coagulation factor viii heavy chain; PDBTitle: crystal structure of human factor viii Phyre2 PDB 3bmv chain A domain 2 Region: 54 - 130 Aligned: 77 Modelled: 77 Confidence: 10.8% Identity: 19% Fold: Prealbumin-like Superfamily: Starch-binding domain-like Family: Starch-binding domain Phyre2 PDB 1a73 chain A Region: 52 - 84 Aligned: 33 Modelled: 33 Confidence: 10.4% Identity: 21% Fold: His-Me finger endonucleases Superfamily: His-Me finger endonucleases Family: Intron-encoded homing endonucleases Phyre2 PDB 3spa chain A Region: 99 - 116 Aligned: 18 Modelled: 18 Confidence: 10.2% Identity: 17% PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase, mitochondrial; PDBTitle: crystal structure of human mitochondrial rna polymerase Phyre2 PDB 3pnr chain B Region: 80 - 88 Aligned: 9 Modelled: 9 Confidence: 8.8% Identity: 56% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 Phyre2 PDB 1iz5 chain A domain 2 Region: 96 - 114 Aligned: 19 Modelled: 19 Confidence: 8.3% Identity: 21% Fold: DNA clamp Superfamily: DNA clamp Family: DNA polymerase processivity factor Phyre2 PDB 1kul chain A Region: 59 - 113 Aligned: 55 Modelled: 55 Confidence: 7.8% Identity: 15% Fold: Prealbumin-like Superfamily: Starch-binding domain-like Family: Starch-binding domain Phyre2 PDB 3l81 chain A Region: 63 - 123 Aligned: 60 Modelled: 61 Confidence: 7.7% Identity: 13% PDB header:transport protein Chain: A: PDB Molecule:ap-4 complex subunit mu-1; PDBTitle: crystal structure of adaptor protein complex 4 (ap-4) mu4 subunit c-2 terminal domain, in complex with a sorting peptide from the amyloid3 precursor protein (app) Phyre2 PDB 1djy chain B Region: 79 - 89 Aligned: 11 Modelled: 11 Confidence: 7.6% Identity: 45% PDB header:lipid degradation Chain: B: PDB Molecule:phosphoinositide-specific phospholipase c, PDBTitle: phosphoinositide-specific phospholipase c-delta1 from rat2 complexed with inositol-2,4,5-trisphosphate Phyre2 PDB 1ud9 chain A domain 2 Region: 96 - 114 Aligned: 19 Modelled: 19 Confidence: 7.5% Identity: 26% Fold: DNA clamp Superfamily: DNA clamp Family: DNA polymerase processivity factor Phyre2 PDB 2ix2 chain A Region: 95 - 114 Aligned: 20 Modelled: 20 Confidence: 7.1% Identity: 20% PDB header:replication Chain: A: PDB Molecule:dna polymerase sliding clamp b; PDBTitle: crystal structure of the heterotrimeric pcna from2 sulfolobus solfataricus Phyre2 PDB 1msw chain D Region: 98 - 116 Aligned: 19 Modelled: 19 Confidence: 7.0% Identity: 21% Fold: DNA/RNA polymerases Superfamily: DNA/RNA polymerases Family: T7 RNA polymerase Phyre2 1 d1jpya_ 2 c2z0bB_ 3 c2kv5A_ 4 c2wskA_ 5 d2zkmx4 6 d1qasa3 7 d1cyga2 8 d1kpta_ 9 c3cdzA_ 10 d3bmva2 11 d1a73a_ 12 c3spaA_ 13 c3pnrB_ 14 d1iz5a2 15 d1kula_ 16 c3l81A_ 17 c1djyB_ 18 d1ud9a2 19 c2ix2A_ 20 d1mswd_ 21 22 23 24 25 26 27 28 29 30 31 32

Detailed template information

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

1 d1jpya_ 51.2 15 Fold:Cystine-knot cytokines Superfamily:Cystine-knot cytokines Family:Interleukin 17F, IL-17F 2 c2z0bB_ 39.7 21 PDB header:hydrolase Chain: B: PDB Molecule:putative glycerophosphodiester phosphodiesterase 5; PDBTitle: crystal structure of cbm20 domain of human putative2 glycerophosphodiester phosphodiesterase 5 (kiaa1434) 3 c2kv5A_ 25.5 29 PDB header:toxin Chain: A: PDB Molecule:putative uncharacterized protein rnai; PDBTitle: solution structure of the par toxin fst in dpc micelles 4 c2wskA_ 14.8 25 PDB header:hydrolase Chain: A: PDB Molecule:glycogen debranching enzyme; PDBTitle: crystal structure of glycogen debranching enzyme glgx from2 escherichia coli k-12 5 d2zkmx4 13.7 55 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC 6 d1qasa3 13.5 45 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC 7 d1cyga2 13.2 14 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Starch-binding domain 8 d1kpta_ 13.0 38 Fold:Yeast killer toxins Superfamily:Yeast killer toxins Family:Virally encoded KP4 toxin 9 c3cdzA_ 11.2 10 PDB header:blood clotting Chain: A: PDB Molecule:coagulation factor viii heavy chain; PDBTitle: crystal structure of human factor viii 10 d3bmva2 10.8 19 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Starch-binding domain 11 d1a73a_ 10.4 21 Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:Intron-encoded homing endonucleases 12 c3spaA_ 10.2 17 PDB header:transferase Chain: A: PDB Molecule:dna-directed rna polymerase, mitochondrial; PDBTitle: crystal structure of human mitochondrial rna polymerase 13 c3pnrB_ 8.8 56 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:pbicp-c; PDBTitle: structure of pbicp-c in complex with falcipain-2 14 d1iz5a2 8.3 21 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 15 d1kula_ 7.8 15 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Starch-binding domain 16 c3l81A_ 7.7 13 PDB header:transport protein Chain: A: PDB Molecule:ap-4 complex subunit mu-1; PDBTitle: crystal structure of adaptor protein complex 4 (ap-4) mu4 subunit c-2 terminal domain, in complex with a sorting peptide from the amyloid3 precursor protein (app) 17 c1djyB_ 7.6 45 PDB header:lipid degradation Chain: B: PDB Molecule:phosphoinositide-specific phospholipase c, PDBTitle: phosphoinositide-specific phospholipase c-delta1 from rat2 complexed with inositol-2,4,5-trisphosphate 18 d1ud9a2 7.5 26 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 19 c2ix2A_ 7.1 20 PDB header:replication Chain: A: PDB Molecule:dna polymerase sliding clamp b; PDBTitle: crystal structure of the heterotrimeric pcna from2 sulfolobus solfataricus 20 d1mswd_ 7.0 21 Fold:DNA/RNA polymerases Superfamily:DNA/RNA polymerases Family:T7 RNA polymerase 21 c3tu8A_ not modelled 7.0 31 PDB header:unknown function Chain: A: PDB Molecule:burkholderia lethal factor 1 (blf1); PDBTitle: crystal structure of the burkholderia lethal factor 1 (blf1) 22 d1u7ba2 not modelled 6.8 26 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 23 c2k1iA_ not modelled 6.2 47 PDB header:antimicrobial protein Chain: A: PDB Molecule:mucosal alpha-defensin; PDBTitle: synthesis, structure and activities of an oral mucosal2 alpha-defensin from rhesus macaque 24 d1fx0b2 not modelled 6.2 26 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase 25 d2jdid2 not modelled 6.0 17 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase 26 c3ohmB_ not modelled 6.0 60 PDB header:signaling protein / hydrolase Chain: B: PDB Molecule:1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase PDBTitle: crystal structure of activated g alpha q bound to its effector2 phospholipase c beta 3 27 c2fjuB_ not modelled 5.9 60 PDB header:signaling protein,apoptosis/hydrolase Chain: B: PDB Molecule:1-phosphatidylinositol-4,5-bisphosphate PDBTitle: activated rac1 bound to its effector phospholipase c beta 2 28 d1cxla2 not modelled 5.6 14 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:Starch-binding domain 29 d1gpla1 not modelled 5.5 26 Fold:Lipase/lipooxygenase domain (PLAT/LH2 domain) Superfamily:Lipase/lipooxygenase domain (PLAT/LH2 domain) Family:Colipase-binding domain 30 d1wb1a1 not modelled 5.4 11 Fold:Reductase/isomerase/elongation factor common domain Superfamily:Translation proteins Family:Elongation factors 31 d1mabb2 not modelled 5.3 17 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:N-terminal domain of alpha and beta subunits of F1 ATP synthase Family:N-terminal domain of alpha and beta subunits of F1 ATP synthase 32 d1edqa1 not modelled 5.3 16 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes

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