Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	T	Q	T	Q	Y	D	L	V	P	A	N	G	S	E	F	E	L	S	V	T	Q	V	P	D	E	Q	H	I	R	F	W	P	Q	H	F	G	T	I	P	Q	W	I	T	L	E	P	R	I	F	A	W	M	D	R	F	C	D	E
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	C	G	G	I	W	S	F	Y	T	L	S	N	G	G	A	F	M	A	P	D	A	D	G	D	D	K	W	H	L	L	N	G	M	N	G	N	G	A	E	M	S	A	E	A	A	G	I	A	V	C	L	I	E	Y	S	H	H	A	C
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.
Sequence		L	T	E	C	D	A	M	T	E	H	Y	Y	R	L	R	D	Y	A	L	Q	H	P	E	S	S	A	I	M	R	I	I	D
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 2kmg chain A Region: 13 - 152 Aligned: 137 Modelled: 140 Confidence: 100.0% Identity: 38% PDB header:gene regulation Chain: A: PDB Molecule:klca; PDBTitle: the structure of the klca and ardb proteins show a novel2 fold and antirestriction activity against type i dna3 restriction systems in vivo but not in vitro Phyre2 PDB 2wj9 chain A Region: 9 - 152 Aligned: 135 Modelled: 144 Confidence: 100.0% Identity: 73% PDB header:hydrolase inhibitor Chain: A: PDB Molecule:intergenic-region protein; PDBTitle: ardb Phyre2 PDB 2v6a chain I domain 1 Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 42.9% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1gk8 chain I Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 38.2% Identity: 25% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 8ruc chain I Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 33.0% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1wdd chain S Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 31.7% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1uzd chain C domain 1 Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 31.4% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1ej7 chain S Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 30.1% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 2tss chain A domain 2 Region: 60 - 77 Aligned: 17 Modelled: 18 Confidence: 25.3% Identity: 29% Fold: beta-Grasp (ubiquitin-like) Superfamily: Superantigen toxins, C-terminal domain Family: Superantigen toxins, C-terminal domain Phyre2 PDB 1uzh chain C domain 1 Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 23.9% Identity: 17% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1x3z chain B domain 1 Region: 125 - 144 Aligned: 20 Modelled: 20 Confidence: 23.4% Identity: 25% Fold: XPC-binding domain Superfamily: XPC-binding domain Family: XPC-binding domain Phyre2 PDB 1ir1 chain S Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 23.2% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 2qsg chain X Region: 125 - 144 Aligned: 20 Modelled: 20 Confidence: 23.0% Identity: 25% PDB header:dna binding protein/dna Chain: X: PDB Molecule:uv excision repair protein rad23; PDBTitle: crystal structure of rad4-rad23 bound to a uv-damaged dna Phyre2 PDB 1m15 chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 22.1% Identity: 36% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1qh4 chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 19.5% Identity: 21% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 2otn chain B Region: 52 - 106 Aligned: 48 Modelled: 49 Confidence: 18.9% Identity: 15% PDB header:isomerase Chain: B: PDB Molecule:diaminopimelate epimerase; PDBTitle: crystal structure of the catalytically active form of diaminopimelate2 epimerase from bacillus anthracis Phyre2 PDB 1vrp chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 18.6% Identity: 21% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1ks8 chain A Region: 52 - 143 Aligned: 87 Modelled: 92 Confidence: 18.6% Identity: 7% Fold: alpha/alpha toroid Superfamily: Six-hairpin glycosidases Family: Cellulases catalytic domain Phyre2 PDB 1u6r chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 18.4% Identity: 21% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1i0e chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 17.6% Identity: 21% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 1 c2kmgA_ 2 c2wj9A_ 3 d2v6ai1 4 d1gk8i_ 5 d8ruci_ 6 d1wdds_ 7 d1uzdc1 8 d1ej7s_ 9 d2tssa2 10 d1uzhc1 11 d1x3zb1 12 d1ir1s_ 13 c2qsgX_ 14 d1m15a1 15 d1qh4a1 16 c2otnB_ 17 d1vrpa1 18 d1ks8a_ 19 d1u6ra1 20 d1i0ea1 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 55 56 57 58 59 60 61 62

Detailed template information

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

1 c2kmgA_ 100.0 38 PDB header:gene regulation Chain: A: PDB Molecule:klca; PDBTitle: the structure of the klca and ardb proteins show a novel2 fold and antirestriction activity against type i dna3 restriction systems in vivo but not in vitro 2 c2wj9A_ 100.0 73 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:intergenic-region protein; PDBTitle: ardb 3 d2v6ai1 42.9 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 4 d1gk8i_ 38.2 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 5 d8ruci_ 33.0 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 6 d1wdds_ 31.7 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 7 d1uzdc1 31.4 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 8 d1ej7s_ 30.1 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 9 d2tssa2 25.3 29 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 10 d1uzhc1 23.9 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 11 d1x3zb1 23.4 25 Fold:XPC-binding domain Superfamily:XPC-binding domain Family:XPC-binding domain 12 d1ir1s_ 23.2 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 13 c2qsgX_ 23.0 25 PDB header:dna binding protein/dna Chain: X: PDB Molecule:uv excision repair protein rad23; PDBTitle: crystal structure of rad4-rad23 bound to a uv-damaged dna 14 d1m15a1 22.1 36 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 15 d1qh4a1 19.5 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 16 c2otnB_ 18.9 15 PDB header:isomerase Chain: B: PDB Molecule:diaminopimelate epimerase; PDBTitle: crystal structure of the catalytically active form of diaminopimelate2 epimerase from bacillus anthracis 17 d1vrpa1 18.6 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 18 d1ks8a_ 18.6 7 Fold:alpha/alpha toroid Superfamily:Six-hairpin glycosidases Family:Cellulases catalytic domain 19 d1u6ra1 18.4 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 20 d1i0ea1 17.6 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 21 d1crka1 not modelled 17.6 14 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 22 d1g0wa1 not modelled 17.5 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 23 d1rbli_ not modelled 17.4 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 24 d1qk1a1 not modelled 17.0 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 25 d1svdm1 not modelled 16.3 14 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 26 d1bxni_ not modelled 16.2 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 27 d1bwvs_ not modelled 15.9 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 28 d1a7ha_ not modelled 13.3 19 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 29 c3lo4B_ not modelled 13.1 44 PDB header:antimicrobial protein Chain: B: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 30 c3lo4A_ not modelled 13.1 44 PDB header:antimicrobial protein Chain: A: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 31 c3cinA_ not modelled 12.2 23 PDB header:isomerase Chain: A: PDB Molecule:myo-inositol-1-phosphate synthase-related protein; PDBTitle: crystal structure of a myo-inositol-1-phosphate synthase-related2 protein (tm_1419) from thermotoga maritima msb8 at 1.70 a resolution 32 d1elpa2 not modelled 11.5 22 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 33 c3aq3A_ not modelled 11.4 39 PDB header:toxin Chain: A: PDB Molecule:6b protein; PDBTitle: molecular insights into plant cell proliferation disturbance by2 agrobacterium protein 6b 34 d1zira2 not modelled 10.7 19 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 35 d1enfa2 not modelled 10.2 18 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 36 d1kfia3 not modelled 9.8 18 Fold:Phosphoglucomutase, first 3 domains Superfamily:Phosphoglucomutase, first 3 domains Family:Phosphoglucomutase, first 3 domains 37 d1ia9a_ not modelled 9.5 18 Fold:Protein kinase-like (PK-like) Superfamily:Protein kinase-like (PK-like) Family:MHCK/EF2 kinase 38 d1bi5a2 not modelled 9.5 15 Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like 39 d1amma2 not modelled 9.4 16 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 40 c1xxgA_ not modelled 9.1 29 PDB header:immune system Chain: A: PDB Molecule:enterotoxin; PDBTitle: crystal structure of staphylococcal enterotoxin g 41 d1y0ua_ not modelled 8.1 28 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 42 c1ck1A_ not modelled 8.1 41 PDB header:toxin Chain: A: PDB Molecule:protein (enterotoxin type c-3); PDBTitle: structure of staphylococcal enterotoxin c3 43 c2xjqA_ not modelled 7.6 16 PDB header:cell adhesion Chain: A: PDB Molecule:flocculation protein flo5; PDBTitle: x-ray structure of the n-terminal domain of the flocculin2 flo5 from saccharomyces cerevisiae 44 d2hg7a1 not modelled 7.5 30 Fold:gpW/XkdW-like Superfamily:XkdW-like Family:XkdW-like 45 c2hg7A_ not modelled 7.5 30 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:phage-like element pbsx protein xkdw; PDBTitle: solution nmr structure of phage-like element pbsx protein2 xkdw, northeast structural genomics consortium target sr355 46 c1d6eC_ not modelled 7.4 31 PDB header:immune system/peptide inhibitor Chain: C: PDB Molecule:enterotoxin type b; PDBTitle: crystal structure of hla-dr4 complex with peptidomimetic and seb 47 d1uaya_ not modelled 7.4 19 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Tyrosine-dependent oxidoreductases 48 d3pmga3 not modelled 7.3 21 Fold:Phosphoglucomutase, first 3 domains Superfamily:Phosphoglucomutase, first 3 domains Family:Phosphoglucomutase, first 3 domains 49 d1j83a_ not modelled 7.2 19 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:Family 17 carbohydrate binding module, CBM17 50 d1okia2 not modelled 6.8 13 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 51 d1ytqa2 not modelled 6.5 8 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 52 d1ueba2 not modelled 6.2 7 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 53 c2k1wA_ not modelled 6.1 23 PDB header:metal binding protein Chain: A: PDB Molecule:beta/gama crystallin family protein; PDBTitle: nmr solution structure of m-crystallin in calcium loaded2 form(holo). 54 c2j4xA_ not modelled 6.1 12 PDB header:signaling protein Chain: A: PDB Molecule:mitogen; PDBTitle: streptococcus dysgalactiae-derived mitogen (sdm) 55 d1h4ax1 not modelled 6.1 13 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 56 d2z8la2 not modelled 6.1 12 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 57 c1et9A_ not modelled 6.1 24 PDB header:immune system Chain: A: PDB Molecule:superantigen spe-h; PDBTitle: crystal structure of the superantigen spe-h from2 streptococcus pyogenes 58 d1amma1 not modelled 6.0 13 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 59 c1bxtA_ not modelled 5.8 35 PDB header:immune system Chain: A: PDB Molecule:protein (streptococcal superantigen); PDBTitle: streptococcal superantigen (ssa) from streptococcus pyogenes 60 d1x4ka2 not modelled 5.7 50 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 61 c1js4B_ not modelled 5.5 8 PDB header:glycosyl hydrolase Chain: B: PDB Molecule:endo/exocellulase e4; PDBTitle: endo/exocellulase:cellobiose from thermomonospora 62 d3buxb3 not modelled 5.2 38 Fold:SH2-like Superfamily:SH2 domain Family:SH2 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

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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