Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	A	S	K	F	G	I	G	Q	Q	V	R	H	S	L	L	G	Y	L	G	V	V	V	D	I	D	P	V	Y	S	L	S	E	P	S	P	D	E	L	A	V	N	D	E	L	R	A	A	P	W	Y	H	V	V	M	E	D	D	N
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																																	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.
Sequence		G	L	P	V	H	T	Y	L	A	E	A	Q	L	S	S	E	L	Q	D	E	H	P	E	Q	P	S	M	D	E	L	A	Q	T	I	R	K	Q	L	Q	A	P	R	L	R	N
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 1vbv chain A domain 1 Region: 3 - 97 Aligned: 77 Modelled: 77 Confidence: 100.0% Identity: 100% Fold: SH3-like barrel Superfamily: YccV-like Family: YccV-like Phyre2 PDB 1ugp chain B Region: 3 - 57 Aligned: 51 Modelled: 55 Confidence: 77.4% Identity: 25% Fold: SH3-like barrel Superfamily: Electron transport accessory proteins Family: Nitrile hydratase beta chain Phyre2 PDB 2dxc chain G Region: 3 - 57 Aligned: 51 Modelled: 55 Confidence: 77.3% Identity: 29% PDB header:hydrolase Chain: G: PDB Molecule:thiocyanate hydrolase subunit alpha; PDBTitle: recombinant thiocyanate hydrolase, fully-matured form Phyre2 PDB 1h3z chain A Region: 3 - 75 Aligned: 63 Modelled: 73 Confidence: 76.5% Identity: 19% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: PWWP domain Phyre2 PDB 3qz9 chain D Region: 3 - 57 Aligned: 51 Modelled: 55 Confidence: 66.3% Identity: 22% PDB header:lyase Chain: D: PDB Molecule:co-type nitrile hydratase beta subunit; PDBTitle: crystal structure of co-type nitrile hydratase beta-y215f from2 pseudomonas putida. Phyre2 PDB 2gy9 chain P domain 1 Region: 47 - 61 Aligned: 15 Modelled: 15 Confidence: 66.2% Identity: 33% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 2uub chain P domain 1 Region: 47 - 61 Aligned: 15 Modelled: 15 Confidence: 63.9% Identity: 27% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 1v29 chain B Region: 3 - 57 Aligned: 51 Modelled: 55 Confidence: 63.9% Identity: 20% Fold: SH3-like barrel Superfamily: Electron transport accessory proteins Family: Nitrile hydratase beta chain Phyre2 PDB 3bn0 chain A domain 1 Region: 47 - 59 Aligned: 13 Modelled: 13 Confidence: 50.2% Identity: 31% Fold: Ribosomal protein S16 Superfamily: Ribosomal protein S16 Family: Ribosomal protein S16 Phyre2 PDB 3bbn chain P Region: 47 - 61 Aligned: 15 Modelled: 15 Confidence: 46.9% Identity: 20% PDB header:ribosome Chain: P: PDB Molecule:ribosomal protein s16; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. Phyre2 PDB 1g5v chain A Region: 5 - 28 Aligned: 24 Modelled: 24 Confidence: 39.4% Identity: 21% 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 1mhn chain A Region: 5 - 28 Aligned: 24 Modelled: 24 Confidence: 32.5% Identity: 21% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: Tudor domain Phyre2 PDB 2l89 chain A Region: 5 - 75 Aligned: 59 Modelled: 63 Confidence: 32.1% Identity: 15% PDB header:protein binding Chain: A: PDB Molecule:pwwp domain-containing protein 1; PDBTitle: solution structure of pdp1 pwwp domain reveals its unique binding2 sites for methylated h4k20 and dna Phyre2 PDB 4a4f chain A Region: 5 - 28 Aligned: 24 Modelled: 24 Confidence: 29.5% Identity: 21% 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 3qii chain A Region: 6 - 77 Aligned: 48 Modelled: 52 Confidence: 24.4% Identity: 25% 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 2rh2 chain A domain 1 Region: 4 - 26 Aligned: 23 Modelled: 23 Confidence: 22.6% Identity: 30% Fold: SH3-like barrel Superfamily: Electron transport accessory proteins Family: R67 dihydrofolate reductase Phyre2 PDB 2equ chain A Region: 6 - 60 Aligned: 35 Modelled: 35 Confidence: 22.1% Identity: 20% 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 Phyre2 PDB 2dig chain A domain 1 Region: 1 - 18 Aligned: 18 Modelled: 18 Confidence: 21.4% Identity: 39% Fold: SH3-like barrel Superfamily: Tudor/PWWP/MBT Family: Tudor domain Phyre2 PDB 2qdy chain B domain 1 Region: 3 - 57 Aligned: 52 Modelled: 55 Confidence: 17.5% Identity: 25% Fold: SH3-like barrel Superfamily: Electron transport accessory proteins Family: Nitrile hydratase beta chain Phyre2 PDB 1y71 chain A domain 1 Region: 6 - 28 Aligned: 23 Modelled: 23 Confidence: 17.4% Identity: 35% Fold: SH3-like barrel Superfamily: Kinase-associated protein B-like Family: Kinase-associated protein B-like Phyre2 1 d1vbva1 2 d1ugpb_ 3 c2dxcG_ 4 d1h3za_ 5 c3qz9D_ 6 d2gy9p1 7 d2uubp1 8 d1v29b_ 9 d3bn0a1 10 c3bbnP_ 11 c1g5vA_ 12 d1mhna_ 13 c2l89A_ 14 c4a4fA_ 15 c3qiiA_ 16 d2rh2a1 17 c2equA_ 18 d2diga1 19 d2qdyb1 20 d1y71a1 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

Detailed template information

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

1 d1vbva1 100.0 100 Fold:SH3-like barrel Superfamily:YccV-like Family:YccV-like 2 d1ugpb_ 77.4 25 Fold:SH3-like barrel Superfamily:Electron transport accessory proteins Family:Nitrile hydratase beta chain 3 c2dxcG_ 77.3 29 PDB header:hydrolase Chain: G: PDB Molecule:thiocyanate hydrolase subunit alpha; PDBTitle: recombinant thiocyanate hydrolase, fully-matured form 4 d1h3za_ 76.5 19 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 5 c3qz9D_ 66.3 22 PDB header:lyase Chain: D: PDB Molecule:co-type nitrile hydratase beta subunit; PDBTitle: crystal structure of co-type nitrile hydratase beta-y215f from2 pseudomonas putida. 6 d2gy9p1 66.2 33 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 7 d2uubp1 63.9 27 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 8 d1v29b_ 63.9 20 Fold:SH3-like barrel Superfamily:Electron transport accessory proteins Family:Nitrile hydratase beta chain 9 d3bn0a1 50.2 31 Fold:Ribosomal protein S16 Superfamily:Ribosomal protein S16 Family:Ribosomal protein S16 10 c3bbnP_ 46.9 20 PDB header:ribosome Chain: P: PDB Molecule:ribosomal protein s16; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 11 c1g5vA_ 39.4 21 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 d1mhna_ 32.5 21 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:Tudor domain 13 c2l89A_ 32.1 15 PDB header:protein binding Chain: A: PDB Molecule:pwwp domain-containing protein 1; PDBTitle: solution structure of pdp1 pwwp domain reveals its unique binding2 sites for methylated h4k20 and dna 14 c4a4fA_ 29.5 21 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 15 c3qiiA_ 24.4 25 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 16 d2rh2a1 22.6 30 Fold:SH3-like barrel Superfamily:Electron transport accessory proteins Family:R67 dihydrofolate reductase 17 c2equA_ 22.1 20 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 18 d2diga1 21.4 39 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:Tudor domain 19 d2qdyb1 17.5 25 Fold:SH3-like barrel Superfamily:Electron transport accessory proteins Family:Nitrile hydratase beta chain 20 d1y71a1 17.4 35 Fold:SH3-like barrel Superfamily:Kinase-associated protein B-like Family:Kinase-associated protein B-like 21 d1x61a2 not modelled 15.4 27 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 22 d1g0da1 not modelled 14.9 16 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:Transglutaminase N-terminal domain 23 c3aicC_ not modelled 13.1 16 PDB header:transferase Chain: C: PDB Molecule:glucosyltransferase-si; PDBTitle: crystal structure of glucansucrase from streptococcus mutans 24 d2imha1 not modelled 12.1 17 Fold:Ntn hydrolase-like Superfamily:N-terminal nucleophile aminohydrolases (Ntn hydrolases) Family:SPO2555-like 25 d1n27a_ not modelled 11.4 19 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 26 d1i3za_ not modelled 10.8 50 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 27 c3sd7A_ not modelled 10.2 17 PDB header:hydrolase Chain: A: PDB Molecule:putative phosphatase; PDBTitle: 1.7 angstrom resolution crystal structure of putative phosphatase from2 clostridium difficile 28 d2c9aa1 not modelled 9.8 10 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 29 d1ed7a_ not modelled 9.2 24 Fold:WW domain-like Superfamily:Carbohydrate binding domain Family:Carbohydrate binding domain 30 d2eyqa1 not modelled 9.1 20 Fold:SH3-like barrel Superfamily:CarD-like Family:CarD-like 31 c2ftcK_ not modelled 9.0 22 PDB header:ribosome Chain: K: PDB Molecule:39s ribosomal protein l19, mitochondrial; PDBTitle: structural model for the large subunit of the mammalian mitochondrial2 ribosome 32 c2crvA_ not modelled 8.9 24 PDB header:translation Chain: A: PDB Molecule:translation initiation factor if-2; PDBTitle: solution structure of c-terminal domain of mitochondrial2 translational initiationfactor 2 33 d1xg8a_ not modelled 8.0 18 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:YuzD-like 34 d2imja1 not modelled 7.9 23 Fold:Cystatin-like Superfamily:NTF2-like Family:PFL3262-like 35 d2nlua1 not modelled 7.7 20 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:PWWP domain 36 c3pnwX_ not modelled 7.6 13 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 37 c2zg6A_ not modelled 7.6 40 PDB header:hydrolase Chain: A: PDB Molecule:putative uncharacterized protein st2620; PDBTitle: crystal structure of hypothetical protein; probable 2-2 haloalkanoic acid dehalogenase from sulfolobus tokodaii 38 d1kzfa_ not modelled 7.0 6 Fold:Acyl-CoA N-acyltransferases (Nat) Superfamily:Acyl-CoA N-acyltransferases (Nat) Family:Autoinducer synthetase 39 c2pqnB_ not modelled 6.5 30 PDB header:apoptosis Chain: B: PDB Molecule:mitochondrial division protein 1; PDBTitle: crystal structure of yeast fis1 complexed with a fragment of yeast2 mdv1 40 c3fnnA_ not modelled 6.2 25 PDB header:transferase Chain: A: PDB Molecule:thymidylate synthase thyx; PDBTitle: biochemical and structural analysis of an atypical thyx:2 corynebacterium glutamicum nchu 87078 depends on thya for3 thymidine biosynthesis 41 c1xniI_ not modelled 6.1 20 PDB header:cell cycle Chain: I: PDB Molecule:tumor suppressor p53-binding protein 1; PDBTitle: tandem tudor domain of 53bp1 42 d1wvia_ not modelled 5.9 44 Fold:HAD-like Superfamily:HAD-like Family:NagD-like 43 d2qqra1 not modelled 5.8 21 Fold:SH3-like barrel Superfamily:Tudor/PWWP/MBT Family:Tudor domain 44 c1e0aB_ not modelled 5.8 19 PDB header:signalling protein Chain: B: PDB Molecule:serine/threonine-protein kinase pak-alpha; PDBTitle: cdc42 complexed with the gtpase binding domain of p212 activated kinase 45 c3kzxA_ not modelled 5.8 20 PDB header:hydrolase Chain: A: PDB Molecule:had-superfamily hydrolase, subfamily ia, variant 1; PDBTitle: crystal structure of a had-superfamily hydrolase from ehrlichia2 chaffeensis at 1.9a resolution 46 c3bboR_ not modelled 5.7 32 PDB header:ribosome Chain: R: PDB Molecule:ribosomal protein l19; PDBTitle: homology model for the spinach chloroplast 50s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome 47 d2fcia1 not modelled 5.7 23 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 48 c2kxgA_ not modelled 5.4 32 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:aspartic protease inhibitor; PDBTitle: the solution structure of the squash aspartic acid proteinase2 inhibitor (sqapi) 49 d1a81e2 not modelled 5.4 43 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 50 c3llrA_ not modelled 5.4 24 PDB header:transferase Chain: A: PDB Molecule:dna (cytosine-5)-methyltransferase 3a; PDBTitle: crystal structure of the pwwp domain of human dna (cytosine-5-)-2 methyltransferase 3 alpha 51 d2shpa2 not modelled 5.2 29 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 52 d1ydfa1 not modelled 5.2 44 Fold:HAD-like Superfamily:HAD-like Family:NagD-like 53 d2j01t1 not modelled 5.1 32 Fold:SH3-like barrel Superfamily:Translation proteins SH3-like domain Family:Ribosomal protein L19

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