Secondary structure and disorder prediction

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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

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A

F

W

V

G

C

A

A

L

L

L

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A

C

S

S

E

P

V

Q

Q

A

T

A

A

H

V

A

P

G

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K

A

S

M

S

S

S

G

E

A

N

C

A

M

I

G

G

S

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S

V

A

R

Q

L

D

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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Sequence

G

T

A

I

G

M

C

A

L

P

N

G

K

R

C

S

E

Q

S

L

A

A

G

S

C

G

S

Y

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 3k0z chain B Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 28.2% Identity: 22% PDB header:lyase Chain: B: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of putative polyketide cyclase (np_977253.1) from2 bacillus cereus atcc 10987 at 1.91 a resolution Phyre2 PDB 3hwp chain A Region: 63 - 72 Aligned: 10 Modelled: 10 Confidence: 25.1% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:phlg; PDBTitle: crystal structure and computational analyses provide insights into the2 catalytic mechanism of 2, 4-diacetylphloroglucinol hydrolase phlg3 from pseudomonas fluorescens Phyre2 PDB 1ews chain A Region: 73 - 88 Aligned: 16 Modelled: 16 Confidence: 24.9% Identity: 38% Fold: Defensin-like Superfamily: Defensin-like Family: Defensin Phyre2 PDB 2gey chain A domain 1 Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 19.8% Identity: 11% Fold: Cystatin-like Superfamily: NTF2-like Family: SnoaL-like polyketide cyclase Phyre2 PDB 1wk1 chain A Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 19.6% Identity: 32% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 2coh chain A domain 2 Region: 37 - 84 Aligned: 48 Modelled: 48 Confidence: 19.6% Identity: 17% Fold: Double-stranded beta-helix Superfamily: cAMP-binding domain-like Family: cAMP-binding domain Phyre2 PDB 1rdl chain 1 Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 17.7% Identity: 21% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 1zhv chain A domain 1 Region: 59 - 80 Aligned: 21 Modelled: 22 Confidence: 15.2% Identity: 19% Fold: Ferredoxin-like Superfamily: ACT-like Family: Atu0741-like Phyre2 PDB 3ehc chain A Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 15.2% Identity: 11% PDB header:unknown function Chain: A: PDB Molecule:snoal-like polyketide cyclase; PDBTitle: crystal structure of a snoal-like polyketide cyclase (atu3018) from2 agrobacterium tumefaciens str. c58 at 2.12 a resolution Phyre2 PDB 3dlm chain A Region: 53 - 84 Aligned: 29 Modelled: 32 Confidence: 14.3% Identity: 31% PDB header:transferase Chain: A: PDB Molecule:histone-lysine n-methyltransferase setdb1; PDBTitle: crystal structure of tudor domain of human histone-lysine n-2 methyltransferase setdb1 Phyre2 PDB 3bdw chain A domain 1 Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 13.7% Identity: 26% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 1mpu chain A Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 13.3% Identity: 21% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 3kkg chain A Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 12.3% Identity: 11% PDB header:lyase Chain: A: PDB Molecule:putative snoal-like polyketide cyclase; PDBTitle: crystal structure of putative snoal-like polyketide cyclase2 (yp_509242.1) from jannaschia sp. ccs1 at 1.40 a resolution Phyre2 PDB 1hup chain A Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 12.1% Identity: 21% PDB header:c-type lectin Chain: A: PDB Molecule:mannose-binding protein; PDBTitle: human mannose binding protein carbohydrate recognition domain2 trimerizes through a triple alpha-helical coiled-coil Phyre2 PDB 1r13 chain A domain 1 Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 11.3% Identity: 26% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 1hup chain A domain 1 Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 11.2% Identity: 21% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 2f99 chain A domain 1 Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 10.5% Identity: 17% Fold: Cystatin-like Superfamily: NTF2-like Family: SnoaL-like polyketide cyclase Phyre2 PDB 1fif chain A domain 1 Region: 42 - 58 Aligned: 17 Modelled: 17 Confidence: 10.3% Identity: 24% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 1ja3 chain A Region: 42 - 60 Aligned: 19 Modelled: 19 Confidence: 10.2% Identity: 21% Fold: C-type lectin-like Superfamily: C-type lectin-like Family: C-type lectin domain Phyre2 PDB 3f9s chain B Region: 64 - 81 Aligned: 18 Modelled: 18 Confidence: 9.8% Identity: 0% PDB header:lyase Chain: B: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of a putative polyketide cyclase (lferr_0659) from2 acidithiobacillus ferrooxidans atcc at 1.76 a resolution Phyre2 1 c3k0zB_ 2 c3hwpA_ 3 d1ewsa_ 4 d2geya1 5 d1wk1a_ 6 d2coha2 7 d1rdl1_ 8 d1zhva1 9 c3ehcA_ 10 c3dlmA_ 11 d3bdwa1 12 d1mpua_ 13 c3kkgA_ 14 c1hupA_ 15 d1r13a1 16 d1hupa1 17 d2f99a1 18 d1fifa1 19 d1ja3a_ 20 c3f9sB_ 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 c3k0zB_ 28.2 22 PDB header:lyase Chain: B: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of putative polyketide cyclase (np_977253.1) from2 bacillus cereus atcc 10987 at 1.91 a resolution 2 c3hwpA_ 25.1 30 PDB header:hydrolase Chain: A: PDB Molecule:phlg; PDBTitle: crystal structure and computational analyses provide insights into the2 catalytic mechanism of 2, 4-diacetylphloroglucinol hydrolase phlg3 from pseudomonas fluorescens 3 d1ewsa_ 24.9 38 Fold:Defensin-like Superfamily:Defensin-like Family:Defensin 4 d2geya1 19.8 11 Fold:Cystatin-like Superfamily:NTF2-like Family:SnoaL-like polyketide cyclase 5 d1wk1a_ 19.6 32 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 6 d2coha2 19.6 17 Fold:Double-stranded beta-helix Superfamily:cAMP-binding domain-like Family:cAMP-binding domain 7 d1rdl1_ 17.7 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 8 d1zhva1 15.2 19 Fold:Ferredoxin-like Superfamily:ACT-like Family:Atu0741-like 9 c3ehcA_ 15.2 11 PDB header:unknown function Chain: A: PDB Molecule:snoal-like polyketide cyclase; PDBTitle: crystal structure of a snoal-like polyketide cyclase (atu3018) from2 agrobacterium tumefaciens str. c58 at 2.12 a resolution 10 c3dlmA_ 14.3 31 PDB header:transferase Chain: A: PDB Molecule:histone-lysine n-methyltransferase setdb1; PDBTitle: crystal structure of tudor domain of human histone-lysine n-2 methyltransferase setdb1 11 d3bdwa1 13.7 26 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 12 d1mpua_ 13.3 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 13 c3kkgA_ 12.3 11 PDB header:lyase Chain: A: PDB Molecule:putative snoal-like polyketide cyclase; PDBTitle: crystal structure of putative snoal-like polyketide cyclase2 (yp_509242.1) from jannaschia sp. ccs1 at 1.40 a resolution 14 c1hupA_ 12.1 21 PDB header:c-type lectin Chain: A: PDB Molecule:mannose-binding protein; PDBTitle: human mannose binding protein carbohydrate recognition domain2 trimerizes through a triple alpha-helical coiled-coil 15 d1r13a1 11.3 26 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 16 d1hupa1 11.2 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 17 d2f99a1 10.5 17 Fold:Cystatin-like Superfamily:NTF2-like Family:SnoaL-like polyketide cyclase 18 d1fifa1 10.3 24 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 19 d1ja3a_ 10.2 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 20 c3f9sB_ 9.8 0 PDB header:lyase Chain: B: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of a putative polyketide cyclase (lferr_0659) from2 acidithiobacillus ferrooxidans atcc at 1.76 a resolution 21 d1egga_ not modelled 9.7 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 22 c1v91A_ not modelled 9.7 44 PDB header:toxin Chain: A: PDB Molecule:delta-palutoxin it2; PDBTitle: solution structure of insectidal toxin delta-paluit2-nh2 23 c3cfwA_ not modelled 9.6 12 PDB header:cell adhesion Chain: A: PDB Molecule:l-selectin; PDBTitle: l-selectin lectin and egf domains 24 d2msba_ not modelled 9.4 24 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 25 d2gexa1 not modelled 9.4 11 Fold:Cystatin-like Superfamily:NTF2-like Family:SnoaL-like polyketide cyclase 26 c3ff7C_ not modelled 9.4 16 PDB header:cell adhesion/immunue system Chain: C: PDB Molecule:killer cell lectin-like receptor subfamily g PDBTitle: structure of nk cell receptor klrg1 bound to e-cadherin 27 c3fh1A_ not modelled 9.3 10 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized ntf2-like protein; PDBTitle: crystal structure of a ntf2-like protein of unknown function (mll8193)2 from mesorhizobium loti at 1.60 a resolution 28 d1pwba1 not modelled 8.9 29 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 29 d1g1ta1 not modelled 8.9 16 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 30 d1byfa_ not modelled 8.9 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 31 d1rjha_ not modelled 8.5 26 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 32 c3m9zA_ not modelled 8.4 21 PDB header:signaling protein Chain: A: PDB Molecule:killer cell lectin-like receptor subfamily b member 1a; PDBTitle: crystal structure of extracellular domain of mouse nkr-p1a 33 d1g1sa1 not modelled 7.9 12 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 34 d1id0a_ not modelled 7.5 10 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family:Histidine kinase 35 d1sjwa_ not modelled 7.4 12 Fold:Cystatin-like Superfamily:NTF2-like Family:SnoaL-like polyketide cyclase 36 c3g12A_ not modelled 7.1 26 PDB header:lyase Chain: A: PDB Molecule:putative lactoylglutathione lyase; PDBTitle: crystal structure of a putative lactoylglutathione lyase2 from bdellovibrio bacteriovorus 37 c1r13A_ not modelled 7.1 29 PDB header:sugar binding protein Chain: A: PDB Molecule:pulmonary surfactant-associated protein a; PDBTitle: carbohydrate recognition and neck domains of surfactant protein a (sp-2 a) 38 c1kwwC_ not modelled 7.0 24 PDB header:immune system, sugar binding protein Chain: C: PDB Molecule:mannose-binding protein a; PDBTitle: rat mannose protein a complexed with a-me-fuc. 39 c2vuvA_ not modelled 7.0 21 PDB header:sugar-binding protein Chain: A: PDB Molecule:codakine; PDBTitle: crystal structure of codakine at 1.3a resolution 40 c1eslA_ not modelled 6.8 18 PDB header:cell adhesion protein Chain: A: PDB Molecule:human e-selectin; PDBTitle: insight into e-selectin(slash)ligand interaction from the2 crystal structure and mutagenesis of the lec(slash)egf3 domains 41 c1twcF_ not modelled 6.5 33 PDB header:transcription Chain: F: PDB Molecule:dna-directed rna polymerases i, ii, and iii 23 PDBTitle: rna polymerase ii complexed with gtp 42 d1twff_ not modelled 6.4 33 Fold:RPB6/omega subunit-like Superfamily:RPB6/omega subunit-like Family:RPB6 43 c3g0kA_ not modelled 6.4 7 PDB header:ca-binding protein Chain: A: PDB Molecule:putative membrane protein; PDBTitle: crystal structure of a protein of unknown function with a cystatin-2 like fold (saro_2880) from novosphingobium aromaticivorans dsm at3 1.30 a resolution 44 c3g8zA_ not modelled 6.3 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein of unknown function with cystatin-like fold; PDBTitle: crystal structure of protein of unknown function with cystatin-like2 fold (np_639274.1) from xanthomonas campestris at 1.90 a resolution 45 c3bc6D_ not modelled 5.9 16 PDB header:immune system Chain: D: PDB Molecule:c-type lectin domain family 4 member k; PDBTitle: the carbohydrate recognition domain of langerin reveals high2 structural similarity with the one of dc-sign but an additional,3 calcium-independent sugar-binding site 46 d1wqjb1 not modelled 5.8 42 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Growth factor receptor domain Family:Growth factor receptor domain 47 d1hq8a_ not modelled 5.7 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 48 d1qo3d_ not modelled 5.6 21 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 49 c3i0yC_ not modelled 5.6 6 PDB header:isomerase Chain: C: PDB Molecule:putative polyketide cyclase; PDBTitle: crystal structure of a putative polyketide cyclase (xcc0381) from2 xanthomonas campestris pv. campestris at 1.50 a resolution 50 c3g8lD_ not modelled 5.6 21 PDB header:immune system Chain: D: PDB Molecule:lectin-related nk cell receptor ly49l1; PDBTitle: crystal structure of murine natural killer cell receptor,2 ly49l4 51 d3c8ja1 not modelled 5.5 26 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 52 c1zhvA_ not modelled 5.5 19 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein atu0741; PDBTitle: x-ray crystal structure protein atu0741 from agobacterium tumefaciens.2 northeast structural genomics consortium target atr8. 53 c1fm5A_ not modelled 5.4 24 PDB header:immune system Chain: A: PDB Molecule:early activation antigen cd69; PDBTitle: crystal structure of human cd69 54 d2c2aa2 not modelled 5.4 14 Fold:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Superfamily:ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase Family:Histidine kinase 55 d1ua7a1 not modelled 5.2 33 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 56 c2qg7A_ not modelled 5.1 33 PDB header:transferase Chain: A: PDB Molecule:ethanolamine kinase pv091845; PDBTitle: plasmodium vivax ethanolamine kinase pv091845 57 d1jaea1 not modelled 5.1 50 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 58 d1xpha1 not modelled 5.1 16 Fold:C-type lectin-like Superfamily:C-type lectin-like Family:C-type lectin domain 59 c3c22B_ not modelled 5.1 16 PDB header:immune system, sugar binding protein Chain: B: PDB Molecule:c-type lectin domain family 4 member k; PDBTitle: crystal structure of the carbohydrate recognition domain of2 human langerin

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