Secondary structure and disorder prediction

1

.

.

.

.

.

.

.

.

10

.

.

.

.

.

.

.

.

.

20

.

.

.

.

.

.

.

.

.

30

.

.

.

.

.

.

.

.

.

40

.

.

.

.

.

.

.

.

.

50

.

.

.

.

.

Sequence

M

N

L

A

I

Q

I

L

A

S

Y

P

P

S

G

K

E

K

G

Y

E

A

Q

P

S

G

G

V

S

A

H

Y

L

H

Y

D

S

D

I

H

T

P

D

P

T

N

A

L

R

T

A

V

P

G

R

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 1k0i chain A domain 2 Region: 5 - 26 Aligned: 22 Modelled: 22 Confidence: 24.5% Identity: 36% Fold: FAD-linked reductases, C-terminal domain Superfamily: FAD-linked reductases, C-terminal domain Family: PHBH-like Phyre2 PDB 3muw chain U Region: 11 - 53 Aligned: 40 Modelled: 41 Confidence: 15.7% Identity: 30% PDB header:virus Chain: U: PDB Molecule:structural polyprotein; PDBTitle: pseudo-atomic structure of the e2-e1 protein shell in sindbis virus Phyre2 PDB 2jqo chain A Region: 6 - 21 Aligned: 16 Modelled: 16 Confidence: 13.0% Identity: 38% PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yoba; PDBTitle: nmr solution structure of bacillus subtilis yoba 21-120:2 northeast structural genomics consortium target sr547 Phyre2 PDB 2ldj chain A Region: 2 - 16 Aligned: 15 Modelled: 15 Confidence: 11.7% Identity: 53% PDB header:de novo protein Chain: A: PDB Molecule:trp-cage mini-protein; PDBTitle: 1h chemical shift assignments and structure of trp-cage mini-protein2 with d-amino acid Phyre2 PDB 1cza chain N domain 3 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 9.7% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 2ovf chain A Region: 5 - 15 Aligned: 11 Modelled: 11 Confidence: 8.2% Identity: 45% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:stal; PDBTitle: crystal structure of stal-pap complex Phyre2 PDB 1bg3 chain A domain 1 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 7.9% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1v4s chain A domain 1 Region: 4 - 19 Aligned: 16 Modelled: 16 Confidence: 7.8% Identity: 38% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1bg3 chain A domain 3 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 7.0% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 1osy chain A Region: 15 - 43 Aligned: 29 Modelled: 29 Confidence: 6.5% Identity: 31% Fold: Immunoglobulin-like beta-sandwich Superfamily: Fungal immunomodulatory protein, FIP Family: Fungal immunomodulatory protein, FIP Phyre2 PDB 2j44 chain A domain 1 Region: 20 - 38 Aligned: 19 Modelled: 19 Confidence: 6.4% Identity: 42% Fold: Prealbumin-like Superfamily: Starch-binding domain-like Family: PUD-like Phyre2 PDB 2h8k chain A Region: 7 - 15 Aligned: 9 Modelled: 9 Confidence: 6.3% Identity: 78% PDB header:transferase Chain: A: PDB Molecule:sult1c3 splice variant d; PDBTitle: human sulfotranferase sult1c3 in complex with pap Phyre2 PDB 1ig8 chain A domain 1 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 6.3% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 PDB 2bh7 chain A Region: 25 - 33 Aligned: 9 Modelled: 9 Confidence: 6.1% Identity: 56% PDB header:hydrolase Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase; PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms Phyre2 PDB 1q44 chain A Region: 7 - 15 Aligned: 9 Modelled: 9 Confidence: 5.8% Identity: 56% Fold: P-loop containing nucleoside triphosphate hydrolases Superfamily: P-loop containing nucleoside triphosphate hydrolases Family: PAPS sulfotransferase Phyre2 PDB 3f3h chain A Region: 15 - 37 Aligned: 23 Modelled: 23 Confidence: 5.6% Identity: 26% PDB header:antitumor protein Chain: A: PDB Molecule:immunomodulatory protein ling zhi-8; PDBTitle: crystal structure and anti-tumor activity of lz-8 from the fungus2 ganoderma lucidium Phyre2 PDB 1v58 chain A domain 2 Region: 5 - 36 Aligned: 32 Modelled: 32 Confidence: 5.3% Identity: 28% Fold: Cystatin-like Superfamily: DsbC/DsbG N-terminal domain-like Family: DsbC/DsbG N-terminal domain-like Phyre2 PDB 1xcr chain A domain 1 Region: 27 - 43 Aligned: 13 Modelled: 17 Confidence: 5.3% Identity: 77% Fold: AF0104/ALDC/Ptd012-like Superfamily: AF0104/ALDC/Ptd012-like Family: PTD012-like Phyre2 PDB 1cza chain N domain 1 Region: 5 - 19 Aligned: 15 Modelled: 15 Confidence: 5.3% Identity: 40% Fold: Ribonuclease H-like motif Superfamily: Actin-like ATPase domain Family: Hexokinase Phyre2 1 d1k0ia2 2 c3muwU_ 3 c2jqoA_ 4 c2ldjA_ 5 d1czan3 6 c2ovfA_ 7 d1bg3a1 8 d1v4sa1 9 d1bg3a3 10 d1osya_ 11 d2j44a1 12 c2h8kA_ 13 d1ig8a1 14 c2bh7A_ 15 d1q44a_ 16 c3f3hA_ 17 d1v58a2 18 d1xcra1 19 d1czan1

Detailed template information

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

1 d1k0ia2 24.5 36 Fold:FAD-linked reductases, C-terminal domain Superfamily:FAD-linked reductases, C-terminal domain Family:PHBH-like 2 c3muwU_ 15.7 30 PDB header:virus Chain: U: PDB Molecule:structural polyprotein; PDBTitle: pseudo-atomic structure of the e2-e1 protein shell in sindbis virus 3 c2jqoA_ 13.0 38 PDB header:structural genomics Chain: A: PDB Molecule:hypothetical protein yoba; PDBTitle: nmr solution structure of bacillus subtilis yoba 21-120:2 northeast structural genomics consortium target sr547 4 c2ldjA_ 11.7 53 PDB header:de novo protein Chain: A: PDB Molecule:trp-cage mini-protein; PDBTitle: 1h chemical shift assignments and structure of trp-cage mini-protein2 with d-amino acid 5 d1czan3 9.7 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 6 c2ovfA_ 8.2 45 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:stal; PDBTitle: crystal structure of stal-pap complex 7 d1bg3a1 7.9 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 8 d1v4sa1 7.8 38 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 9 d1bg3a3 7.0 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 10 d1osya_ 6.5 31 Fold:Immunoglobulin-like beta-sandwich Superfamily:Fungal immunomodulatory protein, FIP Family:Fungal immunomodulatory protein, FIP 11 d2j44a1 6.4 42 Fold:Prealbumin-like Superfamily:Starch-binding domain-like Family:PUD-like 12 c2h8kA_ 6.3 78 PDB header:transferase Chain: A: PDB Molecule:sult1c3 splice variant d; PDBTitle: human sulfotranferase sult1c3 in complex with pap 13 d1ig8a1 6.3 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase 14 c2bh7A_ 6.1 56 PDB header:hydrolase Chain: A: PDB Molecule:n-acetylmuramoyl-l-alanine amidase; PDBTitle: crystal structure of a semet derivative of amid at 2.22 angstroms 15 d1q44a_ 5.8 56 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:PAPS sulfotransferase 16 c3f3hA_ 5.6 26 PDB header:antitumor protein Chain: A: PDB Molecule:immunomodulatory protein ling zhi-8; PDBTitle: crystal structure and anti-tumor activity of lz-8 from the fungus2 ganoderma lucidium 17 d1v58a2 5.3 28 Fold:Cystatin-like Superfamily:DsbC/DsbG N-terminal domain-like Family:DsbC/DsbG N-terminal domain-like 18 d1xcra1 5.3 77 Fold:AF0104/ALDC/Ptd012-like Superfamily:AF0104/ALDC/Ptd012-like Family:PTD012-like 19 d1czan1 5.3 40 Fold:Ribonuclease H-like motif Superfamily:Actin-like ATPase domain Family:Hexokinase

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