Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	M	K	T	K	K	L	M	M	V	A	L	V	S	S	T	L	A	L	S	G	C	G	A	M	S	T	A	I	K	K	R	N	L	E	V	K	T	Q	M	S	E	T	I	W	L	E	P	A	S	E	R	T	V	F	L	Q	I	K	N
Secondary structure
SS confidence
Disorder		?	?	?																	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	S	D	K	D	M	S	G	L	Q	G	K	I	A	D	A	V	K	A	K	G	Y	Q	V	V	T	S	P	D	K	A	Y	Y	W	I	Q	A	N	V	L	K	A	D	K	M	D	L	R	E	S	Q	G	W	L	N	R	G	Y	E	G
Secondary structure
SS confidence
Disorder				?	?	?															?																				?			?	?	?	?										?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		A	A	V	G	A	A	L	G	A	G	I	T	G	Y	N	S	N	S	A	G	A	T	L	G	V	G	L	A	A	G	L	V	G	M	A	A	D	A	M	V	E	D	V	N	Y	T	M	I	T	D	V	Q	I	A	E	R	T	K	A	T
Secondary structure
SS confidence
Disorder					?	?	?		?	?		?	?	?	?	?	?	?	?	?	?	?	?	?																														?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	T	T	D	N	V	A	A	L	R	Q	G	T	S	G	A	K	I	Q	T	S	T	E	T	G	N	Q	H	K	Y	Q	T	R	V	V	S	N	A	N	K	V	N	L	K	F	E	E	A	K	P	V	L	E	D	Q	L	A	K	S	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?				?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.
Sequence		A	N	I	L
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 3bf2 chain A Region: 52 - 98 Aligned: 39 Modelled: 47 Confidence: 81.1% Identity: 15% PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein; PDBTitle: crystal structure of the a1ksw9_neimf protein from2 neisseria meningitidis. northeast structural genomics3 consortium target mr36a Phyre2 PDB 2jxp chain A Region: 48 - 104 Aligned: 52 Modelled: 57 Confidence: 63.2% Identity: 13% PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein b; PDBTitle: solution nmr structure of uncharacterized lipoprotein b2 from nitrosomonas europaea. northeast structural genomics3 target ner45a Phyre2 PDB 2okf chain A domain 1 Region: 69 - 88 Aligned: 20 Modelled: 20 Confidence: 48.0% Identity: 25% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: XisH-like Phyre2 PDB 2inb chain A domain 1 Region: 69 - 88 Aligned: 20 Modelled: 20 Confidence: 47.3% Identity: 20% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: XisH-like Phyre2 PDB 1j1t chain A Region: 54 - 65 Aligned: 12 Modelled: 12 Confidence: 34.3% Identity: 33% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Alginate lyase Phyre2 PDB 1a9x chain A domain 2 Region: 49 - 93 Aligned: 41 Modelled: 45 Confidence: 31.7% Identity: 15% Fold: Methylglyoxal synthase-like Superfamily: Methylglyoxal synthase-like Family: Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain Phyre2 PDB 1nn4 chain A Region: 62 - 93 Aligned: 32 Modelled: 32 Confidence: 29.2% Identity: 25% Fold: Ribose/Galactose isomerase RpiB/AlsB Superfamily: Ribose/Galactose isomerase RpiB/AlsB Family: Ribose/Galactose isomerase RpiB/AlsB Phyre2 PDB 3he8 chain A Region: 62 - 86 Aligned: 25 Modelled: 25 Confidence: 28.9% Identity: 40% PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase; PDBTitle: structural study of clostridium thermocellum ribose-5-phosphate2 isomerase b Phyre2 PDB 2ayx chain A domain 2 Region: 46 - 88 Aligned: 37 Modelled: 43 Confidence: 26.2% Identity: 27% Fold: Flavodoxin-like Superfamily: CheY-like Family: RcsC linker domain-like Phyre2 PDB 1o1x chain A Region: 62 - 86 Aligned: 25 Modelled: 25 Confidence: 23.2% Identity: 28% Fold: Ribose/Galactose isomerase RpiB/AlsB Superfamily: Ribose/Galactose isomerase RpiB/AlsB Family: Ribose/Galactose isomerase RpiB/AlsB Phyre2 PDB 3s5p chain A Region: 49 - 86 Aligned: 34 Modelled: 38 Confidence: 22.6% Identity: 24% PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: crystal structure of ribose-5-phosphate isomerase b rpib from giardia2 lamblia Phyre2 PDB 1cii chain A Region: 113 - 160 Aligned: 44 Modelled: 48 Confidence: 22.0% Identity: 23% PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia Phyre2 PDB 2o6l chain A Region: 45 - 85 Aligned: 41 Modelled: 41 Confidence: 21.4% Identity: 12% PDB header:transferase Chain: A: PDB Molecule:udp-glucuronosyltransferase 2b7; PDBTitle: crystal structure of the udp-glucuronic acid binding domain2 of the human drug metabolizing udp-glucuronosyltransferase3 2b7 Phyre2 PDB 2r76 chain A Region: 61 - 98 Aligned: 37 Modelled: 38 Confidence: 20.3% Identity: 8% PDB header:lipoprotein Chain: A: PDB Molecule:rare lipoprotein b; PDBTitle: crystal structure of the rare lipoprotein b (so_1173) from shewanella2 oneidensis, northeast structural genomics consortium target sor91a Phyre2 PDB 1v7w chain A domain 2 Region: 27 - 64 Aligned: 36 Modelled: 38 Confidence: 18.4% Identity: 19% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: Glycosyltransferase family 36 N-terminal domain Phyre2 PDB 1col chain A Region: 111 - 163 Aligned: 53 Modelled: 53 Confidence: 18.2% Identity: 19% Fold: Toxins' membrane translocation domains Superfamily: Colicin Family: Colicin Phyre2 PDB 3few chain X Region: 111 - 163 Aligned: 53 Modelled: 53 Confidence: 18.2% Identity: 19% PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain Phyre2 PDB 2vvp chain A domain 1 Region: 62 - 86 Aligned: 25 Modelled: 25 Confidence: 15.9% Identity: 20% Fold: Ribose/Galactose isomerase RpiB/AlsB Superfamily: Ribose/Galactose isomerase RpiB/AlsB Family: Ribose/Galactose isomerase RpiB/AlsB Phyre2 PDB 1qoj chain A Region: 222 - 231 Aligned: 10 Modelled: 10 Confidence: 15.4% Identity: 60% Fold: Long alpha-hairpin Superfamily: C-terminal UvrC-binding domain of UvrB Family: C-terminal UvrC-binding domain of UvrB Phyre2 PDB 3k7p chain A Region: 62 - 86 Aligned: 25 Modelled: 25 Confidence: 13.6% Identity: 20% PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: structure of mutant of ribose 5-phosphate isomerase type b from2 trypanosoma cruzi. Phyre2 1 c3bf2A_ 2 c2jxpA_ 3 d2okfa1 4 d2inba1 5 d1j1ta_ 6 d1a9xa2 7 d1nn4a_ 8 c3he8A_ 9 d2ayxa2 10 d1o1xa_ 11 c3s5pA_ 12 c1ciiA_ 13 c2o6lA_ 14 c2r76A_ 15 d1v7wa2 16 d1cola_ 17 c3fewX_ 18 d2vvpa1 19 d1qoja_ 20 c3k7pA_ 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

Detailed template information

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

1 c3bf2A_ 81.1 15 PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein; PDBTitle: crystal structure of the a1ksw9_neimf protein from2 neisseria meningitidis. northeast structural genomics3 consortium target mr36a 2 c2jxpA_ 63.2 13 PDB header:lipoprotein Chain: A: PDB Molecule:putative lipoprotein b; PDBTitle: solution nmr structure of uncharacterized lipoprotein b2 from nitrosomonas europaea. northeast structural genomics3 target ner45a 3 d2okfa1 48.0 25 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:XisH-like 4 d2inba1 47.3 20 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:XisH-like 5 d1j1ta_ 34.3 33 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Alginate lyase 6 d1a9xa2 31.7 15 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Carbamoyl phosphate synthetase, large subunit allosteric, C-terminal domain 7 d1nn4a_ 29.2 25 Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB 8 c3he8A_ 28.9 40 PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase; PDBTitle: structural study of clostridium thermocellum ribose-5-phosphate2 isomerase b 9 d2ayxa2 26.2 27 Fold:Flavodoxin-like Superfamily:CheY-like Family:RcsC linker domain-like 10 d1o1xa_ 23.2 28 Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB 11 c3s5pA_ 22.6 24 PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: crystal structure of ribose-5-phosphate isomerase b rpib from giardia2 lamblia 12 c1ciiA_ 22.0 23 PDB header:transmembrane protein Chain: A: PDB Molecule:colicin ia; PDBTitle: colicin ia 13 c2o6lA_ 21.4 12 PDB header:transferase Chain: A: PDB Molecule:udp-glucuronosyltransferase 2b7; PDBTitle: crystal structure of the udp-glucuronic acid binding domain2 of the human drug metabolizing udp-glucuronosyltransferase3 2b7 14 c2r76A_ 20.3 8 PDB header:lipoprotein Chain: A: PDB Molecule:rare lipoprotein b; PDBTitle: crystal structure of the rare lipoprotein b (so_1173) from shewanella2 oneidensis, northeast structural genomics consortium target sor91a 15 d1v7wa2 18.4 19 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Glycosyltransferase family 36 N-terminal domain 16 d1cola_ 18.2 19 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 17 c3fewX_ 18.2 19 PDB header:immune system Chain: X: PDB Molecule:colicin s4; PDBTitle: structure and function of colicin s4, a colicin with a2 duplicated receptor binding domain 18 d2vvpa1 15.9 20 Fold:Ribose/Galactose isomerase RpiB/AlsB Superfamily:Ribose/Galactose isomerase RpiB/AlsB Family:Ribose/Galactose isomerase RpiB/AlsB 19 d1qoja_ 15.4 60 Fold:Long alpha-hairpin Superfamily:C-terminal UvrC-binding domain of UvrB Family:C-terminal UvrC-binding domain of UvrB 20 c3k7pA_ 13.6 20 PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: structure of mutant of ribose 5-phosphate isomerase type b from2 trypanosoma cruzi. 21 c3m1pA_ not modelled 13.6 20 PDB header:isomerase Chain: A: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: structure of ribose 5-phosphate isomerase type b from trypanosoma2 cruzi, soaked with allose-6-phosphate 22 c1uwvA_ not modelled 12.2 32 PDB header:transferase Chain: A: PDB Molecule:23s rrna (uracil-5-)-methyltransferase ruma; PDBTitle: crystal structure of ruma, the iron-sulfur cluster2 containing e. coli 23s ribosomal rna 5-methyluridine3 methyltransferase 23 c1rh1A_ not modelled 11.9 16 PDB header:antibiotic Chain: A: PDB Molecule:colicin b; PDBTitle: crystal structure of the cytotoxic bacterial protein2 colicin b at 2.5 a resolution 24 c1v7wA_ not modelled 10.7 18 PDB header:transferase Chain: A: PDB Molecule:chitobiose phosphorylase; PDBTitle: crystal structure of vibrio proteolyticus chitobiose phosphorylase in2 complex with glcnac 25 c2lllA_ not modelled 9.4 38 PDB header:structural protein Chain: A: PDB Molecule:lamin-b2; PDBTitle: solution nmr structure of c-terminal globular domain of human lamin-2 b2, northeast structural genomics consortium target hr8546a 26 d1ufga_ not modelled 9.3 25 Fold:Immunoglobulin-like beta-sandwich Superfamily:Lamin A/C globular tail domain Family:Lamin A/C globular tail domain 27 c3jt0B_ not modelled 8.3 32 PDB header:structural protein Chain: B: PDB Molecule:lamin-b1; PDBTitle: crystal structure of the c-terminal fragment (426-558)2 lamin-b1 from homo sapiens, northeast structural genomics3 consortium target hr5546a 28 d1x9la_ not modelled 8.1 30 Fold:Common fold of diphtheria toxin/transcription factors/cytochrome f Superfamily:DR1885-like metal-binding protein Family:DR1885-like metal-binding protein 29 c2cqtA_ not modelled 7.6 17 PDB header:transferase Chain: A: PDB Molecule:cellobiose phosphorylase; PDBTitle: crystal structure of cellvibrio gilvus cellobiose phosphorylase2 crystallized from sodium/potassium phosphate 30 c1w17A_ not modelled 7.5 20 PDB header:hydrolase Chain: A: PDB Molecule:probable polysaccharide deacetylase pdaa; PDBTitle: structure of bacillus subtilis pdaa, a family 42 carbohydrate esterase. 31 d1i4ma_ not modelled 7.3 32 Fold:Prion-like Superfamily:Prion-like Family:Prion-like 32 d1rh1a2 not modelled 7.2 15 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 33 c2yvqA_ not modelled 7.0 13 PDB header:ligase Chain: A: PDB Molecule:carbamoyl-phosphate synthase; PDBTitle: crystal structure of mgs domain of carbamoyl-phosphate2 synthetase from homo sapiens 34 d2as0a2 not modelled 6.9 18 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:hypothetical RNA methyltransferase 35 c3sz3A_ not modelled 6.8 40 PDB header:ligase Chain: A: PDB Molecule:tryptophanyl-trna synthetase; PDBTitle: crystal structure of tryptophanyl-trna synthetase from vibrio cholerae2 with an endogenous tryptophan 36 c1vraB_ not modelled 6.4 39 PDB header:transferase Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj; PDBTitle: crystal structure of arginine biosynthesis bifunctional protein argj2 (10175521) from bacillus halodurans at 2.00 a resolution 37 c2vzkD_ not modelled 6.4 44 PDB header:transferase Chain: D: PDB Molecule:glutamate n-acetyltransferase 2 beta chain; PDBTitle: structure of the acyl-enzyme complex of an n-terminal2 nucleophile (ntn) hydrolase, oat2 38 c2vfyA_ not modelled 6.1 9 PDB header:hydrolase Chain: A: PDB Molecule:akap18 delta; PDBTitle: akap18 delta central domain 39 c3bghB_ not modelled 5.7 22 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative neuraminyllactose-binding hemagglutinin homolog; PDBTitle: crystal structure of putative neuraminyllactose-binding hemagglutinin2 homolog from helicobacter pylori 40 d1uwva2 not modelled 5.6 32 Fold:S-adenosyl-L-methionine-dependent methyltransferases Superfamily:S-adenosyl-L-methionine-dependent methyltransferases Family:(Uracil-5-)-methyltransferase 41 c3it4B_ not modelled 5.5 22 PDB header:transferase Chain: B: PDB Molecule:arginine biosynthesis bifunctional protein argj PDBTitle: the crystal structure of ornithine acetyltransferase from2 mycobacterium tuberculosis (rv1653) at 1.7 a 42 c2k6zA_ not modelled 5.4 17 PDB header:metal transport Chain: A: PDB Molecule:putative uncharacterized protein ttha1943; PDBTitle: solution structures of copper loaded form pcua (trans2 conformation of the peptide bond involving the nitrogen of3 p14) 43 d1ul7a_ not modelled 5.3 26 Fold:TBP-like Superfamily:KA1-like Family:Kinase associated domain 1, KA1 44 c1qy9B_ not modelled 5.3 22 PDB header:unknown function Chain: B: PDB Molecule:hypothetical protein ydde; PDBTitle: crystal structure of e. coli se-met protein ydde 45 d1x6va3 not modelled 5.3 5 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Adenosine-5'phosphosulfate kinase (APS kinase) 46 d1qwia_ not modelled 5.1 15 Fold:OsmC-like Superfamily:OsmC-like Family:Ohr/OsmC resistance proteins 47 d1ifra_ not modelled 5.1 25 Fold:Immunoglobulin-like beta-sandwich Superfamily:Lamin A/C globular tail domain Family:Lamin A/C globular tail domain 48 c2lbgA_ not modelled 5.0 26 PDB header:membrane protein Chain: A: PDB Molecule:major prion protein; PDBTitle: structure of the chr of the prion protein in dpc micelles

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