Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	R	S	S	D	N	D	Q	Y	R	S	R	N	A	L	I	R	R	H	I	E	K	M	D	A	S	L	H	V	G	T	K	E	F	D	I	S	K	V	S	E	V	D	S	V	D	D	L	L	I	D	N	A	A	R	Y	L	L	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																						?	?	?	?	?	?	?		?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.
Sequence		D	W	K	G	V	G	E	L	V	N	G	V	E	V	A	L	E	Y	T	A	E	R	G	I	A	L	L	K	Q	N	P	E	L	Y	W	Q	I	L	A	E	A	A	S	I	A	Q	G	K	E	Q	Q	K	Q	D	T	I	K	K	P
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 2hrk chain B domain 1 Region: 8 - 62 Aligned: 51 Modelled: 55 Confidence: 39.4% Identity: 22% Fold: GST C-terminal domain-like Superfamily: GST C-terminal domain-like Family: Arc1p N-terminal domain-like Phyre2 PDB 3hdf chain A Region: 64 - 101 Aligned: 38 Modelled: 38 Confidence: 24.4% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:lysozyme; PDBTitle: crystal structure of truncated endolysin r21 from phage 21 Phyre2 PDB 2elk chain A Region: 31 - 71 Aligned: 41 Modelled: 41 Confidence: 17.8% Identity: 22% PDB header:transcription Chain: A: PDB Molecule:spcc24b10.08c protein; PDBTitle: solution structure of the sant domain of fission yeast2 spcc24b10.08c protein Phyre2 PDB 2dii chain A Region: 85 - 94 Aligned: 10 Modelled: 10 Confidence: 15.4% Identity: 30% PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit Phyre2 PDB 2dii chain A domain 1 Region: 85 - 94 Aligned: 10 Modelled: 10 Confidence: 15.0% Identity: 30% Fold: BSD domain-like Superfamily: BSD domain-like Family: BSD domain Phyre2 PDB 3e2s chain A Region: 1 - 88 Aligned: 85 Modelled: 88 Confidence: 15.0% Identity: 13% PDB header:oxidoreductase Chain: A: PDB Molecule:proline dehydrogenase; PDBTitle: crystal structure reduced puta86-630 mutant y540s complexed with l-2 proline Phyre2 PDB 1nh1 chain A Region: 37 - 109 Aligned: 68 Modelled: 68 Confidence: 14.7% Identity: 16% Fold: Antivirulence factor Superfamily: Antivirulence factor Family: Antivirulence factor Phyre2 PDB 1nh1 chain A Region: 37 - 109 Aligned: 68 Modelled: 68 Confidence: 14.7% Identity: 16% PDB header:avirulence protein Chain: A: PDB Molecule:avirulence b protein; PDBTitle: crystal structure of the type iii effector avrb from2 pseudomonas syringae. Phyre2 PDB 2l9b chain A Region: 79 - 99 Aligned: 21 Modelled: 21 Confidence: 14.1% Identity: 24% PDB header:transcription Chain: A: PDB Molecule:mrna 3'-end-processing protein rna15; PDBTitle: heterodimer between rna14p monkeytail domain and rna15p hinge domain2 of the yeast cf ia complex Phyre2 PDB 1gvd chain A Region: 47 - 71 Aligned: 25 Modelled: 25 Confidence: 13.9% Identity: 28% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Myb/SANT domain Phyre2 PDB 1x41 chain A domain 1 Region: 47 - 71 Aligned: 25 Modelled: 25 Confidence: 13.7% Identity: 12% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1h88 chain C Region: 47 - 71 Aligned: 25 Modelled: 25 Confidence: 13.0% Identity: 20% PDB header:transcription/dna Chain: C: PDB Molecule:myb proto-oncogene protein; PDBTitle: crystal structure of ternary protein-dna complex1 Phyre2 PDB 2oku chain A domain 1 Region: 8 - 59 Aligned: 41 Modelled: 41 Confidence: 11.5% Identity: 22% Fold: N-cbl like Superfamily: PG0775 C-terminal domain-like Family: PG0775 C-terminal domain-like Phyre2 PDB 2dim chain A Region: 31 - 71 Aligned: 41 Modelled: 41 Confidence: 11.4% Identity: 15% PDB header:dna binding protein Chain: A: PDB Molecule:cell division cycle 5-like protein; PDBTitle: solution structure of the myb_dna-binding domain of human2 cell division cycle 5-like protein Phyre2 PDB 1wxp chain A Region: 31 - 66 Aligned: 36 Modelled: 36 Confidence: 11.0% Identity: 22% PDB header:transport protein Chain: A: PDB Molecule:tho complex subunit 1; PDBTitle: solution structure of the death domain of nuclear matrix2 protein p84 Phyre2 PDB 1a5j chain A domain 1 Region: 47 - 71 Aligned: 25 Modelled: 25 Confidence: 10.6% Identity: 24% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Myb/SANT domain Phyre2 PDB 2elp chain A Region: 17 - 23 Aligned: 7 Modelled: 7 Confidence: 10.1% Identity: 43% PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 Phyre2 PDB 4a69 chain C Region: 43 - 96 Aligned: 40 Modelled: 54 Confidence: 10.0% Identity: 8% PDB header:transcription Chain: C: PDB Molecule:nuclear receptor corepressor 2; PDBTitle: structure of hdac3 bound to corepressor and inositol tetraphosphate Phyre2 PDB 2yus chain A Region: 47 - 71 Aligned: 24 Modelled: 25 Confidence: 9.9% Identity: 33% PDB header:transcription Chain: A: PDB Molecule:swi/snf-related matrix-associated actin- PDBTitle: solution structure of the sant domain of human swi/snf-2 related matrix-associated actin-dependent regulator of3 chromatin subfamily c member 1 Phyre2 PDB 1x41 chain A Region: 47 - 71 Aligned: 25 Modelled: 25 Confidence: 9.8% Identity: 12% PDB header:transcription Chain: A: PDB Molecule:transcriptional adaptor 2-like, isoform b; PDBTitle: solution structure of the myb-like dna binding domain of2 human transcriptional adaptor 2-like, isoform b Phyre2 1 d2hrkb1 2 c3hdfA_ 3 c2elkA_ 4 c2diiA_ 5 d2diia1 6 c3e2sA_ 7 d1nh1a_ 8 c1nh1A_ 9 c2l9bA_ 10 d1gvda_ 11 d1x41a1 12 c1h88C_ 13 d2okua1 14 c2dimA_ 15 c1wxpA_ 16 d1a5ja1 17 c2elpA_ 18 c4a69C_ 19 c2yusA_ 20 c1x41A_ 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

Detailed template information

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

1 d2hrkb1 39.4 22 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Arc1p N-terminal domain-like 2 c3hdfA_ 24.4 16 PDB header:hydrolase Chain: A: PDB Molecule:lysozyme; PDBTitle: crystal structure of truncated endolysin r21 from phage 21 3 c2elkA_ 17.8 22 PDB header:transcription Chain: A: PDB Molecule:spcc24b10.08c protein; PDBTitle: solution structure of the sant domain of fission yeast2 spcc24b10.08c protein 4 c2diiA_ 15.4 30 PDB header:transcription Chain: A: PDB Molecule:tfiih basal transcription factor complex p62 PDBTitle: solution structure of the bsd domain of human tfiih basal2 transcription factor complex p62 subunit 5 d2diia1 15.0 30 Fold:BSD domain-like Superfamily:BSD domain-like Family:BSD domain 6 c3e2sA_ 15.0 13 PDB header:oxidoreductase Chain: A: PDB Molecule:proline dehydrogenase; PDBTitle: crystal structure reduced puta86-630 mutant y540s complexed with l-2 proline 7 d1nh1a_ 14.7 16 Fold:Antivirulence factor Superfamily:Antivirulence factor Family:Antivirulence factor 8 c1nh1A_ 14.7 16 PDB header:avirulence protein Chain: A: PDB Molecule:avirulence b protein; PDBTitle: crystal structure of the type iii effector avrb from2 pseudomonas syringae. 9 c2l9bA_ 14.1 24 PDB header:transcription Chain: A: PDB Molecule:mrna 3'-end-processing protein rna15; PDBTitle: heterodimer between rna14p monkeytail domain and rna15p hinge domain2 of the yeast cf ia complex 10 d1gvda_ 13.9 28 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 11 d1x41a1 13.7 12 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 12 c1h88C_ 13.0 20 PDB header:transcription/dna Chain: C: PDB Molecule:myb proto-oncogene protein; PDBTitle: crystal structure of ternary protein-dna complex1 13 d2okua1 11.5 22 Fold:N-cbl like Superfamily:PG0775 C-terminal domain-like Family:PG0775 C-terminal domain-like 14 c2dimA_ 11.4 15 PDB header:dna binding protein Chain: A: PDB Molecule:cell division cycle 5-like protein; PDBTitle: solution structure of the myb_dna-binding domain of human2 cell division cycle 5-like protein 15 c1wxpA_ 11.0 22 PDB header:transport protein Chain: A: PDB Molecule:tho complex subunit 1; PDBTitle: solution structure of the death domain of nuclear matrix2 protein p84 16 d1a5ja1 10.6 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 17 c2elpA_ 10.1 43 PDB header:transcription Chain: A: PDB Molecule:zinc finger protein 406; PDBTitle: solution structure of the 13th c2h2 zinc finger of human2 zinc finger protein 406 18 c4a69C_ 10.0 8 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor corepressor 2; PDBTitle: structure of hdac3 bound to corepressor and inositol tetraphosphate 19 c2yusA_ 9.9 33 PDB header:transcription Chain: A: PDB Molecule:swi/snf-related matrix-associated actin- PDBTitle: solution structure of the sant domain of human swi/snf-2 related matrix-associated actin-dependent regulator of3 chromatin subfamily c member 1 20 c1x41A_ 9.8 12 PDB header:transcription Chain: A: PDB Molecule:transcriptional adaptor 2-like, isoform b; PDBTitle: solution structure of the myb-like dna binding domain of2 human transcriptional adaptor 2-like, isoform b 21 c1x9dA_ not modelled 9.6 19 PDB header:hydrolase Chain: A: PDB Molecule:endoplasmic reticulum mannosyl-oligosaccharide 1, PDBTitle: crystal structure of human class i alpha-1,2-mannosidase in2 complex with thio-disaccharide substrate analogue 22 d1x9da1 not modelled 9.6 19 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 23 d2f5va1 not modelled 9.5 10 Fold:FAD/NAD(P)-binding domain Superfamily:FAD/NAD(P)-binding domain Family:FAD-linked reductases, N-terminal domain 24 c2d9aA_ not modelled 9.4 20 PDB header:transcription Chain: A: PDB Molecule:myb-related protein b; PDBTitle: solution structure of rsgi ruh-050, a myb dna-binding2 domain in mouse cdna 25 c1guuA_ not modelled 9.3 20 PDB header:transcription Chain: A: PDB Molecule:myb proto-oncogene protein; PDBTitle: crystal structure of c-myb r1 26 d1guua_ not modelled 9.3 20 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 27 c2yqfA_ not modelled 9.3 9 PDB header:protein binding Chain: A: PDB Molecule:ankyrin-1; PDBTitle: solution structure of the death domain of ankyrin-1 28 d1h8ac1 not modelled 8.7 24 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 29 c2kxaA_ not modelled 8.0 32 PDB header:viral protein, immune system Chain: A: PDB Molecule:haemagglutinin ha2 chain peptide; PDBTitle: the hemagglutinin fusion peptide (h1 subtype) at ph 7.4 30 c2eqrA_ not modelled 7.7 11 PDB header:transcription Chain: A: PDB Molecule:nuclear receptor corepressor 1; PDBTitle: solution structure of the first sant domain from human2 nuclear receptor corepressor 1 31 c1x3wB_ not modelled 7.6 32 PDB header:hydrolase Chain: B: PDB Molecule:uv excision repair protein rad23; PDBTitle: structure of a peptide:n-glycanase-rad23 complex 32 c2anxB_ not modelled 7.5 24 PDB header:hydrolase Chain: B: PDB Molecule:lysozyme; PDBTitle: crystal structure of bacteriophage p22 lysozyme mutant l87m 33 c1p8cD_ not modelled 7.5 16 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of tm1620 (apc4843) from thermotoga2 maritima 34 c1iboA_ not modelled 7.0 32 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 7.4 35 c1ibnA_ not modelled 7.0 32 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin ha2 chain peptide; PDBTitle: nmr structure of hemagglutinin fusion peptide in dpc2 micelles at ph 5 36 d1tj1a2 not modelled 7.0 16 Fold:TIM beta/alpha-barrel Superfamily:FAD-linked oxidoreductase Family:Proline dehydrohenase domain of bifunctional PutA protein 37 c1xopA_ not modelled 6.8 30 PDB header:viral protein Chain: A: PDB Molecule:hemagglutinin; PDBTitle: nmr structure of g1v mutant of influenza hemagglutinin2 fusion peptide in dpc micelles at ph 5 38 d2cu7a1 not modelled 6.5 17 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 39 d1nxca_ not modelled 6.5 23 Fold:alpha/alpha toroid Superfamily:Seven-hairpin glycosidases Family:Class I alpha-1;2-mannosidase, catalytic domain 40 d1eo0a_ not modelled 6.5 23 Fold:N-cbl like Superfamily:Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 Family:Conserved domain common to transcription factors TFIIS, elongin A, CRSP70 41 c3g36D_ not modelled 5.9 14 PDB header:nuclear protein Chain: D: PDB Molecule:protein dpy-30 homolog; PDBTitle: crystal structure of the human dpy-30-like c-terminal domain 42 c2l4gA_ not modelled 5.5 32 PDB header:viral protein Chain: A: PDB Molecule:haemagglutinin; PDBTitle: influenza haemagglutinin fusion peptide mutant g13a 43 c2of5K_ not modelled 5.4 23 PDB header:apoptosis Chain: K: PDB Molecule:leucine-rich repeat and death domain-containing PDBTitle: oligomeric death domain complex 44 d1e50b_ not modelled 5.3 35 Fold:Core binding factor beta, CBF Superfamily:Core binding factor beta, CBF Family:Core binding factor beta, CBF 45 d1z0xa2 not modelled 5.3 23 Fold:Tetracyclin repressor-like, C-terminal domain Superfamily:Tetracyclin repressor-like, C-terminal domain Family:Tetracyclin repressor-like, C-terminal domain 46 d1c6vx_ not modelled 5.2 60 Fold:SH3-like barrel Superfamily:DNA-binding domain of retroviral integrase Family:DNA-binding domain of retroviral integrase 47 c1c6vX_ not modelled 5.2 60 PDB header:dna binding protein Chain: X: PDB Molecule:protein (siu89134); PDBTitle: siv integrase (catalytic domain + dna biding domain2 comprising residues 50-293) mutant with phe 185 replaced3 by his (f185h) 48 d2gs4a1 not modelled 5.2 17 Fold:Ferritin-like Superfamily:Ferritin-like Family:YciF-like 49 c3hdeA_ not modelled 5.2 16 PDB header:hydrolase Chain: A: PDB Molecule:lysozyme; PDBTitle: crystal structure of full-length endolysin r21 from phage 21

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