Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	V	I	R	H	E	C	P	S	Y	C	I	A	Q	K	R	V	A	L	R	E	F	S	E	L	V	L	G	T	L	S	L	L	L	E	Q	K	T	N	G	K	C	S	A	S	L	Y	D	C	S	E	E	E	K	L	F	V	K	R
Secondary structure
SS confidence
Disorder		?				?																															?		?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.
Sequence		L	K	L	I	K	A	D	I	H	A	Q	L	K	A	C	D	C	D	I	S	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 2csf chain A domain 1 Region: 21 - 62 Aligned: 36 Modelled: 42 Confidence: 65.6% Identity: 19% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 1wiz chain A Region: 21 - 62 Aligned: 36 Modelled: 42 Confidence: 41.7% Identity: 17% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 2o4a chain A domain 1 Region: 21 - 62 Aligned: 36 Modelled: 42 Confidence: 32.6% Identity: 17% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 2w9y chain A Region: 19 - 74 Aligned: 51 Modelled: 51 Confidence: 32.4% Identity: 18% PDB header:lipid transport Chain: A: PDB Molecule:fatty acid/retinol binding protein protein 7, PDBTitle: the structure of the lipid binding protein ce-far-7 from2 caenorhabditis elegans Phyre2 PDB 1yse chain A Region: 21 - 62 Aligned: 36 Modelled: 42 Confidence: 26.7% Identity: 17% PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding protein satb1; PDBTitle: solution structure of the mar-binding domain of satb1 Phyre2 PDB 1x2l chain A domain 1 Region: 21 - 37 Aligned: 17 Modelled: 17 Confidence: 22.6% Identity: 47% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 1wh8 chain A Region: 21 - 37 Aligned: 17 Modelled: 17 Confidence: 17.5% Identity: 53% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 1s7e chain A domain 2 Region: 21 - 37 Aligned: 17 Modelled: 17 Confidence: 15.1% Identity: 53% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 2eo2 chain A Region: 21 - 61 Aligned: 35 Modelled: 41 Confidence: 13.7% Identity: 43% PDB header:oxidoreductase Chain: A: PDB Molecule:adult male hypothalamus cdna, riken full-length PDBTitle: solution structure of the insertion region (510-573) of2 fthfs domain from mouse methylenetetrahydrofolate3 dehydrogenase (nadp+ dependent) 1-like protein Phyre2 PDB 1wh6 chain A Region: 21 - 62 Aligned: 36 Modelled: 42 Confidence: 12.4% Identity: 28% Fold: lambda repressor-like DNA-binding domains Superfamily: lambda repressor-like DNA-binding domains Family: CUT domain Phyre2 PDB 1yqy chain A Region: 46 - 63 Aligned: 18 Modelled: 18 Confidence: 11.2% Identity: 56% PDB header:hydrolase Chain: A: PDB Molecule:lethal factor; PDBTitle: structure of b. anthrax lethal factor in complex with a2 hydroxamate inhibitor Phyre2 PDB 1sp7 chain A Region: 8 - 17 Aligned: 10 Modelled: 10 Confidence: 11.0% Identity: 60% PDB header:structural protein Chain: A: PDB Molecule:mini-collagen; PDBTitle: structure of the cys-rich c-terminal domain of hydra2 minicollagen Phyre2 PDB 3si5 chain X Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 10.6% Identity: 71% PDB header:cell cycle Chain: X: PDB Molecule:protein casc5; PDBTitle: kinetochore-bubr1 kinase complex Phyre2 PDB 3si5 chain Y Region: 56 - 62 Aligned: 7 Modelled: 7 Confidence: 10.4% Identity: 71% PDB header:cell cycle Chain: Y: PDB Molecule:protein casc5; PDBTitle: kinetochore-bubr1 kinase complex Phyre2 PDB 1j7n chain A domain 3 Region: 51 - 63 Aligned: 13 Modelled: 13 Confidence: 10.1% Identity: 69% Fold: ADP-ribosylation Superfamily: ADP-ribosylation Family: ADP-ribosylating toxins Phyre2 PDB 1axi chain B domain 1 Region: 5 - 11 Aligned: 7 Modelled: 7 Confidence: 9.3% Identity: 57% Fold: Immunoglobulin-like beta-sandwich Superfamily: Fibronectin type III Family: Fibronectin type III Phyre2 PDB 2dt7 chain A Region: 53 - 65 Aligned: 13 Modelled: 13 Confidence: 8.7% Identity: 54% PDB header:rna binding protein Chain: A: PDB Molecule:splicing factor 3a subunit 3; PDBTitle: solution structure of the second surp domain of human2 splicing factor sf3a120 in complex with a fragment of3 human splicing factor sf3a60 Phyre2 PDB 2wj8 chain N Region: 38 - 59 Aligned: 22 Modelled: 22 Confidence: 7.4% Identity: 36% PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein Phyre2 PDB 1u2u chain B Region: 11 - 21 Aligned: 11 Modelled: 11 Confidence: 7.3% Identity: 55% PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: nmr solution structure of a designed heterodimeric leucine2 zipper Phyre2 PDB 2w1o chain A Region: 65 - 81 Aligned: 17 Modelled: 17 Confidence: 6.8% Identity: 18% PDB header:translation Chain: A: PDB Molecule:60s acidic ribosomal protein p2; PDBTitle: nmr structure of dimerization domain of human ribosomal2 protein p2 Phyre2 1 d2csfa1 2 d1wiza_ 3 d2o4aa1 4 c2w9yA_ 5 c1yseA_ 6 d1x2la1 7 d1wh8a_ 8 d1s7ea2 9 c2eo2A_ 10 d1wh6a_ 11 c1yqyA_ 12 c1sp7A_ 13 c3si5X_ 14 c3si5Y_ 15 d1j7na3 16 d1axib1 17 c2dt7A_ 18 c2wj8N_ 19 c1u2uB_ 20 c2w1oA_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 d2csfa1 65.6 19 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 2 d1wiza_ 41.7 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 3 d2o4aa1 32.6 17 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 4 c2w9yA_ 32.4 18 PDB header:lipid transport Chain: A: PDB Molecule:fatty acid/retinol binding protein protein 7, PDBTitle: the structure of the lipid binding protein ce-far-7 from2 caenorhabditis elegans 5 c1yseA_ 26.7 17 PDB header:dna binding protein Chain: A: PDB Molecule:dna-binding protein satb1; PDBTitle: solution structure of the mar-binding domain of satb1 6 d1x2la1 22.6 47 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 7 d1wh8a_ 17.5 53 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 8 d1s7ea2 15.1 53 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 9 c2eo2A_ 13.7 43 PDB header:oxidoreductase Chain: A: PDB Molecule:adult male hypothalamus cdna, riken full-length PDBTitle: solution structure of the insertion region (510-573) of2 fthfs domain from mouse methylenetetrahydrofolate3 dehydrogenase (nadp+ dependent) 1-like protein 10 d1wh6a_ 12.4 28 Fold:lambda repressor-like DNA-binding domains Superfamily:lambda repressor-like DNA-binding domains Family:CUT domain 11 c1yqyA_ 11.2 56 PDB header:hydrolase Chain: A: PDB Molecule:lethal factor; PDBTitle: structure of b. anthrax lethal factor in complex with a2 hydroxamate inhibitor 12 c1sp7A_ 11.0 60 PDB header:structural protein Chain: A: PDB Molecule:mini-collagen; PDBTitle: structure of the cys-rich c-terminal domain of hydra2 minicollagen 13 c3si5X_ 10.6 71 PDB header:cell cycle Chain: X: PDB Molecule:protein casc5; PDBTitle: kinetochore-bubr1 kinase complex 14 c3si5Y_ 10.4 71 PDB header:cell cycle Chain: Y: PDB Molecule:protein casc5; PDBTitle: kinetochore-bubr1 kinase complex 15 d1j7na3 10.1 69 Fold:ADP-ribosylation Superfamily:ADP-ribosylation Family:ADP-ribosylating toxins 16 d1axib1 9.3 57 Fold:Immunoglobulin-like beta-sandwich Superfamily:Fibronectin type III Family:Fibronectin type III 17 c2dt7A_ 8.7 54 PDB header:rna binding protein Chain: A: PDB Molecule:splicing factor 3a subunit 3; PDBTitle: solution structure of the second surp domain of human2 splicing factor sf3a120 in complex with a fragment of3 human splicing factor sf3a60 18 c2wj8N_ 7.4 36 PDB header:rna binding protein/rna Chain: N: PDB Molecule:nucleoprotein; PDBTitle: respiratory syncitial virus ribonucleoprotein 19 c1u2uB_ 7.3 55 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: nmr solution structure of a designed heterodimeric leucine2 zipper 20 c2w1oA_ 6.8 18 PDB header:translation Chain: A: PDB Molecule:60s acidic ribosomal protein p2; PDBTitle: nmr structure of dimerization domain of human ribosomal2 protein p2 21 d1xb4a1 not modelled 6.0 8 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 22 c2d9sA_ not modelled 6.0 50 PDB header:ligase Chain: A: PDB Molecule:cbl e3 ubiquitin protein ligase; PDBTitle: solution structure of rsgi ruh-049, a uba domain from mouse2 cdna 23 c2zmeD_ not modelled 5.7 31 PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex 24 c3cuqD_ not modelled 5.7 31 PDB header:protein transport Chain: D: PDB Molecule:vacuolar protein-sorting-associated protein 25; PDBTitle: integrated structural and functional model of the human escrt-ii2 complex 25 c2hbpA_ not modelled 5.7 17 PDB header:endocytosis, protein binding Chain: A: PDB Molecule:cytoskeleton assembly control protein sla1; PDBTitle: solution structure of sla1 homology domain 1 26 c2fphX_ not modelled 5.7 27 PDB header:dna binding protein Chain: X: PDB Molecule:ylmh; PDBTitle: cell division protein ylmh from streptococcus pneumoniae 27 c1xb4C_ not modelled 5.5 8 PDB header:unknown function Chain: C: PDB Molecule:hypothetical 23.6 kda protein in yuh1-ura8 PDBTitle: crystal structure of subunit vps25 of the endosomal2 trafficking complex escrt-ii 28 c3iz5w_ not modelled 5.5 27 PDB header:ribosome Chain: W: PDB Molecule:60s ribosomal protein l22 (l22e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 29 c3izcw_ not modelled 5.2 24 PDB header:ribosome Chain: W: PDB Molecule:60s ribosomal protein rpl22 (l22e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 30 c3eq5G_ not modelled 5.2 23 PDB header:signaling protein Chain: G: PDB Molecule:ski-like protein; PDBTitle: crystal structure of fragment 137 to 238 of the human ski-like protein

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