Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	V	N	D	R	V	T	V	K	T	D	G	G	P	R	R	P	G	V	V	L	A	V	E	E	F	S	E	G	T	M	Y	L	V	S	L	E	D	Y	P	L	G	I	W	F	F	N	E	A	G	H	Q	D	G	I	F	V	E	K
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?					?	?																																																?
Disorder confidence
		.	.
Sequence		A	E
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 1whm chain A Region: 1 - 58 Aligned: 56 Modelled: 58 Confidence: 88.3% Identity: 29% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1tov chain A Region: 1 - 58 Aligned: 56 Modelled: 57 Confidence: 87.8% Identity: 36% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1whg chain A Region: 1 - 58 Aligned: 56 Modelled: 57 Confidence: 87.1% Identity: 38% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1whl chain A Region: 1 - 58 Aligned: 57 Modelled: 58 Confidence: 84.5% Identity: 30% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1whk chain A Region: 1 - 58 Aligned: 53 Modelled: 58 Confidence: 80.3% Identity: 21% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2e4h chain A Region: 1 - 58 Aligned: 52 Modelled: 58 Confidence: 60.1% Identity: 46% PDB header:structural protein Chain: A: PDB Molecule:restin; PDBTitle: solution structure of cytoskeletal protein in complex with2 tubulin tail Phyre2 PDB 2cp6 chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 58.5% Identity: 44% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2cp5 chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 55.1% Identity: 35% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2cp3 chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 51.7% Identity: 44% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1ixd chain A Region: 1 - 57 Aligned: 48 Modelled: 57 Confidence: 46.6% Identity: 27% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2cow chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 43.0% Identity: 44% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2equ chain A Region: 1 - 39 Aligned: 36 Modelled: 39 Confidence: 36.4% Identity: 17% 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 3qii chain A Region: 1 - 39 Aligned: 36 Modelled: 39 Confidence: 35.2% 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 2a7y chain A Region: 2 - 47 Aligned: 46 Modelled: 46 Confidence: 34.2% Identity: 20% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein rv2302/mt2359; PDBTitle: solution structure of the conserved hypothetical protein2 rv2302 from the bacterium mycobacterium tuberculosis Phyre2 PDB 2a7y chain A domain 1 Region: 2 - 47 Aligned: 46 Modelled: 46 Confidence: 34.2% Identity: 20% Fold: SH3-like barrel Superfamily: Cell growth inhibitor/plasmid maintenance toxic component Family: Rv2302-like Phyre2 PDB 2e3h chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 53 Confidence: 32.1% Identity: 44% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 2cp0 chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 31.8% Identity: 35% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 3p8d chain B Region: 2 - 39 Aligned: 35 Modelled: 38 Confidence: 30.0% Identity: 26% 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) Phyre2 PDB 2coz chain A domain 1 Region: 1 - 58 Aligned: 52 Modelled: 57 Confidence: 25.4% Identity: 40% Fold: SH3-like barrel Superfamily: Cap-Gly domain Family: Cap-Gly domain Phyre2 PDB 1q67 chain B Region: 29 - 56 Aligned: 28 Modelled: 28 Confidence: 24.5% Identity: 14% PDB header:transcription Chain: B: PDB Molecule:decapping protein involved in mrna degradation- PDBTitle: crystal structure of dcp1p Phyre2 1 d1whma_ 2 d1tova_ 3 d1whga_ 4 d1whla_ 5 d1whka_ 6 c2e4hA_ 7 d2cp6a1 8 d2cp5a1 9 d2cp3a1 10 d1ixda_ 11 d2cowa1 12 c2equA_ 13 c3qiiA_ 14 c2a7yA_ 15 d2a7ya1 16 d2e3ha1 17 d2cp0a1 18 c3p8dB_ 19 d2coza1 20 c1q67B_ 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

Detailed template information

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

1 d1whma_ 88.3 29 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 2 d1tova_ 87.8 36 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 3 d1whga_ 87.1 38 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 4 d1whla_ 84.5 30 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 5 d1whka_ 80.3 21 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 6 c2e4hA_ 60.1 46 PDB header:structural protein Chain: A: PDB Molecule:restin; PDBTitle: solution structure of cytoskeletal protein in complex with2 tubulin tail 7 d2cp6a1 58.5 44 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 8 d2cp5a1 55.1 35 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 9 d2cp3a1 51.7 44 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 10 d1ixda_ 46.6 27 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 11 d2cowa1 43.0 44 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 12 c2equA_ 36.4 17 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 13 c3qiiA_ 35.2 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 14 c2a7yA_ 34.2 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein rv2302/mt2359; PDBTitle: solution structure of the conserved hypothetical protein2 rv2302 from the bacterium mycobacterium tuberculosis 15 d2a7ya1 34.2 20 Fold:SH3-like barrel Superfamily:Cell growth inhibitor/plasmid maintenance toxic component Family:Rv2302-like 16 d2e3ha1 32.1 44 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 17 d2cp0a1 31.8 35 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 18 c3p8dB_ 30.0 26 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) 19 d2coza1 25.4 40 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 20 c1q67B_ 24.5 14 PDB header:transcription Chain: B: PDB Molecule:decapping protein involved in mrna degradation- PDBTitle: crystal structure of dcp1p 21 c2qqsB_ not modelled 23.7 25 PDB header:oxidoreductase Chain: B: PDB Molecule:jmjc domain-containing histone demethylation PDBTitle: jmjd2a tandem tudor domains in complex with a trimethylated2 histone h4-k20 peptide 22 c1w4sA_ not modelled 21.3 33 PDB header:nuclear protein Chain: A: PDB Molecule:polybromo 1 protein; PDBTitle: crystal structure of the proximal bah domain of polybromo 23 c2z0wA_ not modelled 20.4 24 PDB header:protein binding Chain: A: PDB Molecule:cap-gly domain-containing linker protein 4; PDBTitle: crystal structure of the 2nd cap-gly domain in human restin-2 like protein 2 reveals a swapped-dimer 24 c2xdpA_ not modelled 19.7 25 PDB header:oxidoreductase Chain: A: PDB Molecule:lysine-specific demethylase 4c; PDBTitle: crystal structure of the tudor domain of human jmjd2c 25 c2l89A_ not modelled 17.4 31 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 26 d1whha_ not modelled 17.1 37 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 27 c3tekA_ not modelled 16.7 42 PDB header:dna binding protein Chain: A: PDB Molecule:thermodbp-single stranded dna binding protein; PDBTitle: thermodbp: a non-canonical single-stranded dna binding protein with a2 novel structure and mechanism 28 c2w4eA_ not modelled 16.0 24 PDB header:hydrolase Chain: A: PDB Molecule:mutt/nudix family protein; PDBTitle: structure of an n-terminally truncated nudix hydrolase2 dr2204 from deinococcus radiodurans 29 d1q67a_ not modelled 16.0 12 Fold:PH domain-like barrel Superfamily:PH domain-like Family:Dcp1 30 d2hqha1 not modelled 14.9 30 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 31 c2k6dA_ not modelled 11.8 22 PDB header:sh3 domain/ubiquitin Chain: A: PDB Molecule:sh3 domain-containing kinase-binding protein 1; PDBTitle: cin85 sh3-c domain in complex with ubiquitin 32 c2c1lA_ not modelled 11.5 75 PDB header:hydrolase Chain: A: PDB Molecule:restriction endonuclease; PDBTitle: structure of the bfii restriction endonuclease 33 d1okga3 not modelled 11.0 57 Fold:FKBP-like Superfamily:FKBP-like Family:3-mercaptopyruvate sulfurtransferase, C-terminal domain 34 c1zq1B_ not modelled 10.1 30 PDB header:lyase Chain: B: PDB Molecule:glutamyl-trna(gln) amidotransferase subunit d; PDBTitle: structure of gatde trna-dependent amidotransferase from2 pyrococcus abyssi 35 c2qkmG_ not modelled 10.0 27 PDB header:hydrolase Chain: G: PDB Molecule:spbc3b9.21 protein; PDBTitle: the crystal structure of fission yeast mrna decapping enzyme dcp1-dcp22 complex 36 d1whja_ not modelled 10.0 24 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 37 d2e3ia1 not modelled 9.5 37 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 38 d2coya1 not modelled 9.2 28 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 39 d2cp2a1 not modelled 8.7 28 Fold:SH3-like barrel Superfamily:Cap-Gly domain Family:Cap-Gly domain 40 d1o48a_ not modelled 8.5 40 Fold:SH2-like Superfamily:SH2 domain Family:SH2 domain 41 d2grea1 not modelled 7.7 20 Fold:Domain of alpha and beta subunits of F1 ATP synthase-like Superfamily:Aminopeptidase/glucanase lid domain Family:Aminopeptidase/glucanase lid domain 42 c3dlmA_ not modelled 7.4 23 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 43 d1zq1a1 not modelled 7.1 29 Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like 44 d3d03a1 not modelled 7.0 21 Fold:Metallo-dependent phosphatases Superfamily:Metallo-dependent phosphatases Family:GpdQ-like 45 d1b34b_ not modelled 7.0 19 Fold:Sm-like fold Superfamily:Sm-like ribonucleoproteins Family:Sm motif of small nuclear ribonucleoproteins, SNRNP 46 c1b34B_ not modelled 7.0 19 PDB header:rna binding protein Chain: B: PDB Molecule:protein (small nuclear ribonucleoprotein sm d2); PDBTitle: crystal structure of the d1d2 sub-complex from the human snrnp core2 domain 47 c1geaA_ not modelled 6.8 63 PDB header:neuropeptide Chain: A: PDB Molecule:pituitary adenylate cyclase activating PDBTitle: receptor-bound conformation of pacap21 48 d2cx1a1 not modelled 6.4 29 Fold:PUA domain-like Superfamily:PUA domain-like Family:PUA domain 49 d2d6fa1 not modelled 6.2 26 Fold:Sm-like fold Superfamily:GatD N-terminal domain-like Family:GatD N-terminal domain-like 50 d2pu9b1 not modelled 6.1 55 Fold:SH3-like barrel Superfamily:Electron transport accessory proteins Family:Ferredoxin thioredoxin reductase (FTR), alpha (variable) chain 51 c3d0fA_ not modelled 6.0 15 PDB header:transferase Chain: A: PDB Molecule:penicillin-binding 1 transmembrane protein mrca; PDBTitle: structure of the big_1156.2 domain of putative penicillin-binding2 protein mrca from nitrosomonas europaea atcc 19718 52 c2ro0A_ not modelled 5.5 13 PDB header:transferase Chain: A: PDB Molecule:histone acetyltransferase esa1; PDBTitle: solution structure of the knotted tudor domain of the yeast2 histone acetyltransferase, esa1 53 c2dlpA_ not modelled 5.2 26 PDB header:structural protein Chain: A: PDB Molecule:kiaa1783 protein; PDBTitle: solution structure of the sh3 domain of human kiaa17832 protein 54 d2npta1 not modelled 5.2 63 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 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