Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	E	T	G	G	Q	P	P	V	S	F	P	V	K	D	V	A	G	L	L	F	L	L	R	R	L	T	R	R	G	R	N	A	A	C	G	Q	C	P	A	S	G	W	A	R	D	G	R	F	Y	R	S	R	L	A	S	V	T	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																						?	?			?	?	?	?	?		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.
Sequence		Y	A	S	P	S	P	F	S	D	E	R	P	S	S	R	F	R	G	I	F	S	P	S	K	R	R	R	L	R	Y	S	T	V	G	L	T	R	Y	R	T	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 1kea chain A Region: 15 - 44 Aligned: 30 Modelled: 30 Confidence: 38.2% Identity: 20% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Mismatch glycosylase Phyre2 PDB 1u61 chain A Region: 25 - 43 Aligned: 19 Modelled: 19 Confidence: 23.2% Identity: 42% Fold: RNase III domain-like Superfamily: RNase III domain-like Family: RNase III catalytic domain-like Phyre2 PDB 1rrq chain A Region: 15 - 44 Aligned: 30 Modelled: 30 Confidence: 21.9% Identity: 23% PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair Phyre2 PDB 2qvt chain A Region: 49 - 60 Aligned: 12 Modelled: 12 Confidence: 20.9% Identity: 75% PDB header:unknown function Chain: A: PDB Molecule:avrl567-d; PDBTitle: structure of melampsora lini avirulence protein, avrl567-d Phyre2 PDB 1mhn chain A Region: 32 - 59 Aligned: 28 Modelled: 28 Confidence: 19.7% Identity: 25% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: Tudor domain Phyre2 PDB 1orn chain A Region: 15 - 49 Aligned: 35 Modelled: 35 Confidence: 18.3% Identity: 17% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Endonuclease III Phyre2 PDB 2y8s chain E Region: 1 - 11 Aligned: 11 Modelled: 11 Confidence: 18.1% Identity: 64% PDB header:membrane protein Chain: E: PDB Molecule:rhoptry neck protein 2; PDBTitle: co-structure of an ama1 mutant (y230a) with a surface2 exposed region of ron2 from toxoplasma gondii Phyre2 PDB 2abk chain A Region: 15 - 43 Aligned: 29 Modelled: 29 Confidence: 17.2% Identity: 31% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Endonuclease III Phyre2 PDB 3n5n chain X Region: 15 - 46 Aligned: 32 Modelled: 32 Confidence: 17.1% Identity: 22% PDB header:hydrolase Chain: X: PDB Molecule:a/g-specific adenine dna glycosylase; PDBTitle: crystal structure analysis of the catalytic domain and interdomain2 connector of human muty homologue Phyre2 PDB 4a4f chain A Region: 37 - 59 Aligned: 23 Modelled: 23 Confidence: 14.3% Identity: 22% PDB header:rna binding protein Chain: A: PDB Molecule:survival of motor neuron-related-splicing factor 30; PDBTitle: solution structure of spf30 tudor domain in complex with2 symmetrically dimethylated arginine Phyre2 PDB 1g5v chain A Region: 37 - 59 Aligned: 23 Modelled: 23 Confidence: 14.2% Identity: 30% PDB header:translation Chain: A: PDB Molecule:survival motor neuron protein 1; PDBTitle: solution structure of the tudor domain of the human smn2 protein Phyre2 PDB 1kg2 chain A Region: 14 - 43 Aligned: 30 Modelled: 30 Confidence: 12.6% Identity: 17% Fold: DNA-glycosylase Superfamily: DNA-glycosylase Family: Mismatch glycosylase Phyre2 PDB 3ush chain B Region: 34 - 48 Aligned: 15 Modelled: 15 Confidence: 12.0% Identity: 47% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the q2s0r5 protein from salinibacter ruber,2 northeast structural genomics consortium target srr207 Phyre2 PDB 2d9t chain A domain 1 Region: 37 - 59 Aligned: 23 Modelled: 23 Confidence: 11.4% Identity: 22% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: Tudor domain Phyre2 PDB 2d9t chain A Region: 44 - 59 Aligned: 16 Modelled: 16 Confidence: 10.6% Identity: 25% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tudor domain-containing protein 3; PDBTitle: solution structure of the tudor domain of tudor domain2 containing protein 3 from mouse Phyre2 PDB 2aqa chain A domain 1 Region: 57 - 80 Aligned: 24 Modelled: 24 Confidence: 10.5% Identity: 33% Fold: Rubredoxin-like Superfamily: Nop10-like SnoRNP Family: Nucleolar RNA-binding protein Nop10-like Phyre2 PDB 2ey4 chain E domain 1 Region: 57 - 77 Aligned: 21 Modelled: 21 Confidence: 10.4% Identity: 38% Fold: Rubredoxin-like Superfamily: Nop10-like SnoRNP Family: Nucleolar RNA-binding protein Nop10-like Phyre2 PDB 2jnv chain A Region: 35 - 42 Aligned: 8 Modelled: 8 Confidence: 10.2% Identity: 75% PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 1, chloroplast; PDBTitle: solution structure of c-terminal domain of nifu-like2 protein from oryza sativa Phyre2 PDB 3qii chain A Region: 37 - 59 Aligned: 22 Modelled: 23 Confidence: 10.2% Identity: 27% PDB header:transcription regulator Chain: A: PDB Molecule:phd finger protein 20; PDBTitle: crystal structure of tudor domain 2 of human phd finger protein 20 Phyre2 PDB 2b5l chain C Region: 35 - 41 Aligned: 7 Modelled: 7 Confidence: 9.8% Identity: 57% PDB header:protein binding/viral protein Chain: C: PDB Molecule:nonstructural protein v; PDBTitle: crystal structure of ddb1 in complex with simian virus 5 v2 protein Phyre2 1 d1keaa_ 2 d1u61a_ 3 c1rrqA_ 4 c2qvtA_ 5 d1mhna_ 6 d1orna_ 7 c2y8sE_ 8 d2abka_ 9 c3n5nX_ 10 c4a4fA_ 11 c1g5vA_ 12 d1kg2a_ 13 c3ushB_ 14 d2d9ta1 15 c2d9tA_ 16 d2aqaa1 17 d2ey4e1 18 c2jnvA_ 19 c3qiiA_ 20 c2b5lC_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42

Detailed template information

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

1 d1keaa_ 38.2 20 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 2 d1u61a_ 23.2 42 Fold:RNase III domain-like Superfamily:RNase III domain-like Family:RNase III catalytic domain-like 3 c1rrqA_ 21.9 23 PDB header:hydrolase/dna Chain: A: PDB Molecule:muty; PDBTitle: muty adenine glycosylase in complex with dna containing an2 a:oxog pair 4 c2qvtA_ 20.9 75 PDB header:unknown function Chain: A: PDB Molecule:avrl567-d; PDBTitle: structure of melampsora lini avirulence protein, avrl567-d 5 d1mhna_ 19.7 25 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:Tudor domain 6 d1orna_ 18.3 17 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 7 c2y8sE_ 18.1 64 PDB header:membrane protein Chain: E: PDB Molecule:rhoptry neck protein 2; PDBTitle: co-structure of an ama1 mutant (y230a) with a surface2 exposed region of ron2 from toxoplasma gondii 8 d2abka_ 17.2 31 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Endonuclease III 9 c3n5nX_ 17.1 22 PDB header:hydrolase Chain: X: PDB Molecule:a/g-specific adenine dna glycosylase; PDBTitle: crystal structure analysis of the catalytic domain and interdomain2 connector of human muty homologue 10 c4a4fA_ 14.3 22 PDB header:rna binding protein Chain: A: PDB Molecule:survival of motor neuron-related-splicing factor 30; PDBTitle: solution structure of spf30 tudor domain in complex with2 symmetrically dimethylated arginine 11 c1g5vA_ 14.2 30 PDB header:translation Chain: A: PDB Molecule:survival motor neuron protein 1; PDBTitle: solution structure of the tudor domain of the human smn2 protein 12 d1kg2a_ 12.6 17 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 13 c3ushB_ 12.0 47 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the q2s0r5 protein from salinibacter ruber,2 northeast structural genomics consortium target srr207 14 d2d9ta1 11.4 22 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:Tudor domain 15 c2d9tA_ 10.6 25 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:tudor domain-containing protein 3; PDBTitle: solution structure of the tudor domain of tudor domain2 containing protein 3 from mouse 16 d2aqaa1 10.5 33 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-like 17 d2ey4e1 10.4 38 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-like 18 c2jnvA_ 10.2 75 PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 1, chloroplast; PDBTitle: solution structure of c-terminal domain of nifu-like2 protein from oryza sativa 19 c3qiiA_ 10.2 27 PDB header:transcription regulator Chain: A: PDB Molecule:phd finger protein 20; PDBTitle: crystal structure of tudor domain 2 of human phd finger protein 20 20 c2b5lC_ 9.8 57 PDB header:protein binding/viral protein Chain: C: PDB Molecule:nonstructural protein v; PDBTitle: crystal structure of ddb1 in complex with simian virus 5 v2 protein 21 d1xhja_ not modelled 9.0 75 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 22 c3pnwX_ not modelled 8.9 22 PDB header:protein binding/immune system Chain: X: PDB Molecule:tudor domain-containing protein 3; PDBTitle: crystal structure of the tudor domain of human tdrd3 in complex with2 an anti-tdrd3 fab 23 c2equA_ not modelled 8.8 21 PDB header:protein binding Chain: A: PDB Molecule:phd finger protein 20-like 1; PDBTitle: solution structure of the tudor domain of phd finger2 protein 20-like 1 24 d1en2a2 not modelled 8.6 48 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Plant lectins/antimicrobial peptides Family:Hevein-like agglutinin (lectin) domain 25 d1ehda2 not modelled 8.5 48 Fold:Knottins (small inhibitors, toxins, lectins) Superfamily:Plant lectins/antimicrobial peptides Family:Hevein-like agglutinin (lectin) domain 26 d1rrqa1 not modelled 8.4 24 Fold:DNA-glycosylase Superfamily:DNA-glycosylase Family:Mismatch glycosylase 27 d2apob1 not modelled 8.4 33 Fold:Rubredoxin-like Superfamily:Nop10-like SnoRNP Family:Nucleolar RNA-binding protein Nop10-like 28 c2gslE_ not modelled 8.1 22 PDB header:structural genomics, unknown function Chain: E: PDB Molecule:hypothetical protein; PDBTitle: x-ray crystal structure of protein fn1578 from fusobacterium2 nucleatum. northeast structural genomics consortium target nr1. 29 d1veha_ not modelled 8.0 50 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 30 d1khia2 not modelled 7.7 39 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 31 c2z51A_ not modelled 7.5 75 PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 2, chloroplast; PDBTitle: crystal structure of arabidopsis cnfu involved in iron-2 sulfur cluster biosynthesis 32 d1eysh2 not modelled 7.0 46 Fold:Single transmembrane helix Superfamily:Photosystem II reaction centre subunit H, transmembrane region Family:Photosystem II reaction centre subunit H, transmembrane region 33 c3p8dB_ not modelled 6.8 27 PDB header:protein binding Chain: B: PDB Molecule:medulloblastoma antigen mu-mb-50.72; PDBTitle: crystal structure of the second tudor domain of human phf20 (homodimer2 form) 34 c2h2rB_ not modelled 6.0 44 PDB header:immune system Chain: B: PDB Molecule:low affinity immunoglobulin epsilon fc receptor PDBTitle: crystal structure of the human cd23 lectin domain, apo form 35 d1v7wa2 not modelled 5.8 19 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Glycosyltransferase family 36 N-terminal domain 36 c1xniI_ not modelled 5.7 25 PDB header:cell cycle Chain: I: PDB Molecule:tumor suppressor p53-binding protein 1; PDBTitle: tandem tudor domain of 53bp1 37 d1vqoi1 not modelled 5.6 50 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Ribosomal protein L11, C-terminal domain Family:Ribosomal protein L11, C-terminal domain 38 d2fug11 not modelled 5.4 29 Fold:Bromodomain-like Superfamily:Nqo1C-terminal domain-like Family:Nqo1C-terminal domain-like 39 c3i0uA_ not modelled 5.2 27 PDB header:lyase Chain: A: PDB Molecule:phosphothreonine lyase ospf; PDBTitle: structure of the type iii effector/phosphothreonine lyase ospf from2 shigella flexneri 40 c1vq8I_ not modelled 5.1 50 PDB header:ribosome Chain: I: PDB Molecule:50s ribosomal protein l11p; PDBTitle: the structure of ccda-phe-cap-bio and the antibiotic sparsomycin bound2 to the large ribosomal subunit of haloarcula marismortui 41 d2p8ta1 not modelled 5.1 43 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:PH0730 N-terminal domain-like 42 d1twfi1 not modelled 5.1 29 Fold:Rubredoxin-like Superfamily:Zinc beta-ribbon Family:Transcriptional factor domain

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