Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	T	T	Q	T	Q	H	D	L	A	P	A	N	Q	P	E	F	E	L	T	V	T	P	V	P	D	E	Q	R	I	D	F	W	P	Q	Y	F	G	A	I	P	Q	W	L	L	L	E	P	H	I	F	A	W	M	D	R	F	C	E	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?	?				?	?	?	?							?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	S	G	G	I	W	S	F	Y	T	L	S	N	G	G	A	F	M	S	P	E	P	D	N	D	E	T	W	R	L	F	N	C	L	N	G	N	D	A	Q	M	S	A	E	A	A	G	I	A	V	C	L	I	A	Y	S	H	H	A	C
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.
Sequence		R	T	E	C	D	A	M	T	A	H	Y	Y	R	L	R	E	Y	A	M	Q	H	P	E	A	H	A	I	L	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: 42% 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: 70% 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: 41.7% 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: 37.0% 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: 32.4% 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: 30.9% Identity: 40% 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 1uzd chain C domain 1 Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 30.7% Identity: 33% 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: 30.5% Identity: 40% Fold: XPC-binding domain Superfamily: XPC-binding domain Family: XPC-binding domain Phyre2 PDB 1wdd chain S Region: 61 - 72 Aligned: 12 Modelled: 12 Confidence: 30.4% 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: 29.3% 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: 28.4% 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: 22.1% Identity: 17% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1m15 chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 20.7% Identity: 29% 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: 18.5% Identity: 29% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1ir1 chain S Region: 61 - 75 Aligned: 15 Modelled: 15 Confidence: 17.3% Identity: 33% Fold: RuBisCO, small subunit Superfamily: RuBisCO, small subunit Family: RuBisCO, small subunit Phyre2 PDB 1vrp chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 17.3% Identity: 29% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1u6r chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 17.2% 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: 16.5% Identity: 21% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1g0w chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 16.4% Identity: 29% Fold: Guanido kinase N-terminal domain Superfamily: Guanido kinase N-terminal domain Family: Guanido kinase N-terminal domain Phyre2 PDB 1crk chain A domain 1 Region: 52 - 65 Aligned: 14 Modelled: 14 Confidence: 16.3% Identity: 14% 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 c2qsgX_ 7 d1uzdc1 8 d1x3zb1 9 d1wdds_ 10 d1ej7s_ 11 d2tssa2 12 d1uzhc1 13 d1m15a1 14 d1qh4a1 15 d1ir1s_ 16 d1vrpa1 17 d1u6ra1 18 d1i0ea1 19 d1g0wa1 20 d1crka1 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

Detailed template information

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

1 c2kmgA_ 100.0 42 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 70 PDB header:hydrolase inhibitor Chain: A: PDB Molecule:intergenic-region protein; PDBTitle: ardb 3 d2v6ai1 41.7 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 4 d1gk8i_ 37.0 25 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 5 d8ruci_ 32.4 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 6 c2qsgX_ 30.9 40 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 7 d1uzdc1 30.7 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 8 d1x3zb1 30.5 40 Fold:XPC-binding domain Superfamily:XPC-binding domain Family:XPC-binding domain 9 d1wdds_ 30.4 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 10 d1ej7s_ 29.3 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 11 d2tssa2 28.4 29 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 12 d1uzhc1 22.1 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 13 d1m15a1 20.7 29 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 14 d1qh4a1 18.5 29 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 15 d1ir1s_ 17.3 33 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 16 d1vrpa1 17.3 29 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 17 d1u6ra1 17.2 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 18 d1i0ea1 16.5 21 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 19 d1g0wa1 16.4 29 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 20 d1crka1 16.3 14 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 21 d1qk1a1 not modelled 15.9 14 Fold:Guanido kinase N-terminal domain Superfamily:Guanido kinase N-terminal domain Family:Guanido kinase N-terminal domain 22 d1rbli_ not modelled 15.6 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 23 d1bxni_ not modelled 14.7 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 24 d1bwvs_ not modelled 14.3 17 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 25 d1svdm1 not modelled 14.1 14 Fold:RuBisCO, small subunit Superfamily:RuBisCO, small subunit Family:RuBisCO, small subunit 26 d1enfa2 not modelled 13.5 18 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 27 c3lo4B_ not modelled 12.2 44 PDB header:antimicrobial protein Chain: B: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 28 c3lo4A_ not modelled 12.2 44 PDB header:antimicrobial protein Chain: A: PDB Molecule:neutrophil defensin 1; PDBTitle: crystal structure of human alpha-defensin 1 (r24a mutant) 29 d1y0ua_ not modelled 10.6 32 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:ArsR-like transcriptional regulators 30 c1ck1A_ not modelled 10.3 41 PDB header:toxin Chain: A: PDB Molecule:protein (enterotoxin type c-3); PDBTitle: structure of staphylococcal enterotoxin c3 31 c1xxgA_ not modelled 10.2 26 PDB header:immune system Chain: A: PDB Molecule:enterotoxin; PDBTitle: crystal structure of staphylococcal enterotoxin g 32 d1ks8a_ not modelled 10.1 9 Fold:alpha/alpha toroid Superfamily:Six-hairpin glycosidases Family:Cellulases catalytic domain 33 c3cinA_ not modelled 9.2 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 34 c1et9A_ not modelled 8.8 29 PDB header:immune system Chain: A: PDB Molecule:superantigen spe-h; PDBTitle: crystal structure of the superantigen spe-h from2 streptococcus pyogenes 35 d2dawa1 not modelled 8.5 11 Fold:UBC-like Superfamily:UBC-like Family:RWD domain 36 d2z8la2 not modelled 8.3 12 Fold:beta-Grasp (ubiquitin-like) Superfamily:Superantigen toxins, C-terminal domain Family:Superantigen toxins, C-terminal domain 37 c1d6eC_ not modelled 8.2 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 38 d2daxa1 not modelled 8.1 13 Fold:UBC-like Superfamily:UBC-like Family:RWD domain 39 c1bxtA_ not modelled 7.8 35 PDB header:immune system Chain: A: PDB Molecule:protein (streptococcal superantigen); PDBTitle: streptococcal superantigen (ssa) from streptococcus pyogenes 40 c2j4xA_ not modelled 7.1 12 PDB header:signaling protein Chain: A: PDB Molecule:mitogen; PDBTitle: streptococcus dysgalactiae-derived mitogen (sdm) 41 c1u1iC_ not modelled 6.4 18 PDB header:isomerase Chain: C: PDB Molecule:myo-inositol-1-phosphate synthase; PDBTitle: myo-inositol phosphate synthase mips from a. fulgidus 42 c2hg7A_ not modelled 6.2 25 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 43 d2hg7a1 not modelled 6.2 25 Fold:gpW/XkdW-like Superfamily:XkdW-like Family:XkdW-like 44 c1uupA_ not modelled 6.1 29 PDB header:toxin Chain: A: PDB Molecule:exotoxin type a; PDBTitle: crystal structure of a dimeric form of streptococcal2 pyrogenic exotoxin a (spea1). 45 c3bmaC_ not modelled 6.0 15 PDB header:ligase Chain: C: PDB Molecule:d-alanyl-lipoteichoic acid synthetase; PDBTitle: crystal structure of d-alanyl-lipoteichoic acid synthetase from2 streptococcus pneumoniae r6 46 c2ij0A_ not modelled 5.4 29 PDB header:protein binding Chain: A: PDB Molecule:toxic shock syndrome toxin-1; PDBTitle: structural basis of t cell specificity and activation by2 the bacterial superantigen toxic shock syndrome toxin-1 47 c3cxbA_ not modelled 5.4 20 PDB header:signaling protein Chain: A: PDB Molecule:protein sifa; PDBTitle: crystal structure of sifa and skip 48 c1ktkB_ not modelled 5.3 18 PDB header:immune system Chain: B: PDB Molecule:exotoxin type c; PDBTitle: complex of streptococcal pyrogenic enterotoxin c (spec)2 with a human t cell receptor beta chain (vbeta2.1) 49 d1x4ka2 not modelled 5.3 38 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 50 c1zfuA_ not modelled 5.2 50 PDB header:antimicrobial protein Chain: A: PDB Molecule:plectasin; PDBTitle: plectasin:a peptide antibiotic with therapeutic potential2 from a saprophytic fungus 51 c2vg2C_ not modelled 5.0 18 PDB header:transferase Chain: C: PDB Molecule:undecaprenyl pyrophosphate synthetase; PDBTitle: rv2361 with ipp

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