Secondary structure and disorder prediction

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Sequence		M	I	A	H	H	F	G	T	D	E	I	P	R	Q	C	V	T	P	G	D	Y	V	L	H	E	G	R	T	Y	I	A	S	A	N	N	I	K	K	R	K	L	Y	I	R	N	L	T	T	K	T	F	I	T	D	R	M	I	K	V	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																										?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.
Sequence		L	G	R	D	G	L	P	V	K	A	E	S	W
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 2d49 chain A Region: 17 - 31 Aligned: 15 Modelled: 15 Confidence: 46.5% Identity: 47% PDB header:hydrolase Chain: A: PDB Molecule:chitinase c; PDBTitle: solution structure of the chitin-binding domain of2 streptomyces griseus chitinase c Phyre2 PDB 1goi chain A domain 1 Region: 17 - 31 Aligned: 15 Modelled: 15 Confidence: 36.2% Identity: 20% Fold: WW domain-like Superfamily: Carbohydrate binding domain Family: Carbohydrate binding domain Phyre2 PDB 1tie chain A Region: 19 - 72 Aligned: 50 Modelled: 54 Confidence: 32.9% Identity: 24% Fold: beta-Trefoil Superfamily: STI-like Family: Kunitz (STI) inhibitors Phyre2 PDB 2je6 chain I domain 2 Region: 12 - 59 Aligned: 46 Modelled: 48 Confidence: 30.1% Identity: 22% Fold: Barrel-sandwich hybrid Superfamily: Ribosomal L27 protein-like Family: ECR1 N-terminal domain-like Phyre2 PDB 3bx1 chain C domain 1 Region: 19 - 69 Aligned: 51 Modelled: 51 Confidence: 21.0% Identity: 20% Fold: beta-Trefoil Superfamily: STI-like Family: Kunitz (STI) inhibitors Phyre2 PDB 1r8o chain A Region: 26 - 72 Aligned: 43 Modelled: 47 Confidence: 20.4% Identity: 21% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:kunitz trypsin inhibitor; PDBTitle: crystal structure of an unusual kunitz-type trypsin inhibitor from2 copaifera langsdorffii seeds Phyre2 PDB 2kca chain A Region: 13 - 49 Aligned: 37 Modelled: 37 Confidence: 19.7% Identity: 11% PDB header:virus Chain: A: PDB Molecule:bacteriophage spp1 complete nucleotide sequence; PDBTitle: gp16 Phyre2 PDB 1aiw chain A Region: 19 - 31 Aligned: 13 Modelled: 13 Confidence: 16.9% Identity: 31% Fold: WW domain-like Superfamily: Carbohydrate binding domain Family: Carbohydrate binding domain Phyre2 PDB 1ed7 chain A Region: 14 - 31 Aligned: 18 Modelled: 18 Confidence: 16.8% Identity: 33% Fold: WW domain-like Superfamily: Carbohydrate binding domain Family: Carbohydrate binding domain Phyre2 PDB 1eyl chain A Region: 19 - 73 Aligned: 55 Modelled: 55 Confidence: 15.3% Identity: 13% Fold: beta-Trefoil Superfamily: STI-like Family: Kunitz (STI) inhibitors Phyre2 PDB 2ba0 chain A domain 2 Region: 13 - 59 Aligned: 45 Modelled: 47 Confidence: 15.1% Identity: 18% Fold: Barrel-sandwich hybrid Superfamily: Ribosomal L27 protein-like Family: ECR1 N-terminal domain-like Phyre2 PDB 2eif chain A Region: 7 - 31 Aligned: 25 Modelled: 25 Confidence: 14.1% Identity: 24% PDB header:gene regulation Chain: A: PDB Molecule:protein (eukaryotic translation initiation factor 5a); PDBTitle: eukaryotic translation initiation factor 5a from methanococcus2 jannaschii Phyre2 PDB 3iir chain A Region: 19 - 73 Aligned: 55 Modelled: 55 Confidence: 13.9% Identity: 13% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:trypsin inhibitor; PDBTitle: crystal structure of miraculin like protein from seeds of murraya2 koenigii Phyre2 PDB 2qn4 chain B Region: 19 - 69 Aligned: 46 Modelled: 51 Confidence: 11.5% Identity: 24% PDB header:hydrolase inhibitor Chain: B: PDB Molecule:alpha-amylase/subtilisin inhibitor; PDBTitle: structure and function study of rice bifunctional alpha-2 amylase/subtilisin inhibitor from oryza sativa Phyre2 PDB 1j83 chain A Region: 16 - 31 Aligned: 16 Modelled: 16 Confidence: 11.5% Identity: 31% Fold: Galactose-binding domain-like Superfamily: Galactose-binding domain-like Family: Family 17 carbohydrate binding module, CBM17 Phyre2 PDB 3flo chain G Region: 4 - 52 Aligned: 49 Modelled: 49 Confidence: 10.9% Identity: 16% PDB header:transferase Chain: G: PDB Molecule:dna polymerase alpha subunit b; PDBTitle: crystal structure of the carboxyl-terminal domain of yeast2 dna polymerase alpha in complex with its b subunit Phyre2 PDB 1tdh chain A domain 3 Region: 17 - 28 Aligned: 12 Modelled: 12 Confidence: 10.5% Identity: 42% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: C-terminal, Zn-finger domain of MutM-like DNA repair proteins Phyre2 PDB 2juf chain A Region: 12 - 23 Aligned: 12 Modelled: 12 Confidence: 10.4% Identity: 33% PDB header:gene regulation Chain: A: PDB Molecule:p53-associated parkin-like cytoplasmic protein; PDBTitle: nmr solution structure of parc cph domain. nesg target2 hr3443b/sgc-toronto Phyre2 PDB 2jng chain A domain 1 Region: 12 - 23 Aligned: 12 Modelled: 12 Confidence: 9.9% Identity: 33% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: CPH domain Phyre2 PDB 1lkt chain A Region: 27 - 63 Aligned: 33 Modelled: 37 Confidence: 9.3% Identity: 33% Fold: Head-binding domain of phage P22 tailspike protein Superfamily: Head-binding domain of phage P22 tailspike protein Family: Head-binding domain of phage P22 tailspike protein Phyre2 1 c2d49A_ 2 d1goia1 3 d1tiea_ 4 d2je6i2 5 d3bx1c1 6 c1r8oA_ 7 c2kcaA_ 8 d1aiwa_ 9 d1ed7a_ 10 d1eyla_ 11 d2ba0a2 12 c2eifA_ 13 c3iirA_ 14 c2qn4B_ 15 d1j83a_ 16 c3floG_ 17 d1tdha3 18 c2jufA_ 19 d2jnga1 20 d1lkta_ 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 c2d49A_ 46.5 47 PDB header:hydrolase Chain: A: PDB Molecule:chitinase c; PDBTitle: solution structure of the chitin-binding domain of2 streptomyces griseus chitinase c 2 d1goia1 36.2 20 Fold:WW domain-like Superfamily:Carbohydrate binding domain Family:Carbohydrate binding domain 3 d1tiea_ 32.9 24 Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors 4 d2je6i2 30.1 22 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 5 d3bx1c1 21.0 20 Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors 6 c1r8oA_ 20.4 21 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:kunitz trypsin inhibitor; PDBTitle: crystal structure of an unusual kunitz-type trypsin inhibitor from2 copaifera langsdorffii seeds 7 c2kcaA_ 19.7 11 PDB header:virus Chain: A: PDB Molecule:bacteriophage spp1 complete nucleotide sequence; PDBTitle: gp16 8 d1aiwa_ 16.9 31 Fold:WW domain-like Superfamily:Carbohydrate binding domain Family:Carbohydrate binding domain 9 d1ed7a_ 16.8 33 Fold:WW domain-like Superfamily:Carbohydrate binding domain Family:Carbohydrate binding domain 10 d1eyla_ 15.3 13 Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors 11 d2ba0a2 15.1 18 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 12 c2eifA_ 14.1 24 PDB header:gene regulation Chain: A: PDB Molecule:protein (eukaryotic translation initiation factor 5a); PDBTitle: eukaryotic translation initiation factor 5a from methanococcus2 jannaschii 13 c3iirA_ 13.9 13 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:trypsin inhibitor; PDBTitle: crystal structure of miraculin like protein from seeds of murraya2 koenigii 14 c2qn4B_ 11.5 24 PDB header:hydrolase inhibitor Chain: B: PDB Molecule:alpha-amylase/subtilisin inhibitor; PDBTitle: structure and function study of rice bifunctional alpha-2 amylase/subtilisin inhibitor from oryza sativa 15 d1j83a_ 11.5 31 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 17 carbohydrate binding module, CBM17 16 c3floG_ 10.9 16 PDB header:transferase Chain: G: PDB Molecule:dna polymerase alpha subunit b; PDBTitle: crystal structure of the carboxyl-terminal domain of yeast2 dna polymerase alpha in complex with its b subunit 17 d1tdha3 10.5 42 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:C-terminal, Zn-finger domain of MutM-like DNA repair proteins 18 c2jufA_ 10.4 33 PDB header:gene regulation Chain: A: PDB Molecule:p53-associated parkin-like cytoplasmic protein; PDBTitle: nmr solution structure of parc cph domain. nesg target2 hr3443b/sgc-toronto 19 d2jnga1 9.9 33 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:CPH domain 20 d1lkta_ 9.3 33 Fold:Head-binding domain of phage P22 tailspike protein Superfamily:Head-binding domain of phage P22 tailspike protein Family:Head-binding domain of phage P22 tailspike protein 21 c1fmeA_ not modelled 7.9 33 PDB header:de novo protein Chain: A: PDB Molecule:fsd-ey peptide; PDBTitle: solution structure of fsd-ey, a novel peptide assuming a2 beta-beta-alpha fold 22 c3s9xA_ not modelled 7.3 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:asch domain; PDBTitle: high resolution crystal structure of asch domain from lactobacillus2 crispatus jv v101 23 d1t62a_ not modelled 7.2 17 Fold:PUA domain-like Superfamily:PUA domain-like Family:Hypothetical protein EF3133 24 c1bkbA_ not modelled 7.1 20 PDB header:translation Chain: A: PDB Molecule:translation initiation factor 5a; PDBTitle: initiation factor 5a from archebacterium pyrobaculum2 aerophilum 25 c3hksB_ not modelled 7.1 13 PDB header:translation, rna binding protein Chain: B: PDB Molecule:eukaryotic translation initiation factor 5a-2; PDBTitle: crystal structure of eukaryotic translation initiation2 factor eif-5a2 from arabidopsis thaliana 26 c2l23A_ not modelled 7.0 24 PDB header:transcription Chain: A: PDB Molecule:mediator of rna polymerase ii transcription subunit 25; PDBTitle: nmr structure of the acid (activator interacting domain) of the human2 mediator med25 protein 27 d2nn6h2 not modelled 6.9 16 Fold:Barrel-sandwich hybrid Superfamily:Ribosomal L27 protein-like Family:ECR1 N-terminal domain-like 28 d1a1xa_ not modelled 6.6 20 Fold:Oncogene products Superfamily:Oncogene products Family:Oncogene products 29 d1wbaa_ not modelled 5.3 9 Fold:beta-Trefoil Superfamily:STI-like Family:Kunitz (STI) inhibitors

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