Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	K	Q	R	T	L	K	R	I	V	Q	A	T	G	V	G	L	H	T	G	K	K	V	T	L	T	L	R	P	A	P	A	N	T	G	V	I	Y	R	R	T	D	L	N	P	P	V	D	F	P	A	D	A	K	S	V	R	D	T
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	L	C	T	C	L	V	N	E	H	D	V	R	I	S	T	V	E	H	L	N	A	A	L	A	G	L	G	I	D	N	I	V	I	E	V	N	A	P	E	I	P	I	M	D	G	S	A	A	P	F	V	Y	L	L	L	D	A	G	I
Secondary structure
SS confidence
Disorder			?							?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		D	E	L	N	C	A	K	K	F	V	R	I	K	E	T	V	R	V	E	D	G	D	K	W	A	E	F	K	P	Y	N	G	F	S	L	D	F	T	I	D	F	N	H	P	A	I	D	S	S	N	Q	R	Y	A	M	N	F	S	A	D
Secondary structure
SS confidence
Disorder		?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	F	M	R	Q	I	S	R	A	R	T	F	G	F	M	R	D	I	E	Y	L	Q	S	R	G	L	C	L	G	G	S	F	D	C	A	I	V	V	D	D	Y	R	V	L	N	E	D	G	L	R	F	E	D	E	F	V	R	H	K	M
Secondary structure
SS confidence
Disorder																												?	?															?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.	.	.	.	.	.	280	.	.	.	.	.	.	.	.	.	290	.	.	.	.	.	.	.	.	.	300
Sequence		L	D	A	I	G	D	L	F	M	C	G	H	N	I	I	G	A	F	T	A	Y	K	S	G	H	A	L	N	N	K	L	L	Q	A	V	L	A	K	Q	E	A	W	E	Y	V	T	F	Q	D	D	A	E	L	P	L	A	F	K	A	P
Secondary structure
SS confidence
Disorder																																																			?			?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.
Sequence		S	A	V	L	A
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 3nzk chain B Region: 1 - 300 Aligned: 300 Modelled: 300 Confidence: 100.0% Identity: 93% PDB header:hydrolase Chain: B: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: structure of lpxc from yersinia enterocolitica complexed with chir0902 inhibitor Phyre2 PDB 2ves chain A Region: 1 - 295 Aligned: 294 Modelled: 295 Confidence: 100.0% Identity: 59% PDB header:hydrolase Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: crystal structure of lpxc from pseudomonas aeruginosa2 complexed with the potent bb-78485 inhibitor Phyre2 PDB 2go4 chain A Region: 4 - 279 Aligned: 264 Modelled: 272 Confidence: 100.0% Identity: 34% PDB header:hydrolase Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: crystal structure of aquifex aeolicus lpxc complexed with tu-514 Phyre2 PDB 1p42 chain A domain 2 Region: 128 - 280 Aligned: 147 Modelled: 153 Confidence: 100.0% Identity: 33% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC Phyre2 PDB 1p42 chain A domain 1 Region: 3 - 125 Aligned: 118 Modelled: 123 Confidence: 100.0% Identity: 33% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC Phyre2 PDB 2bv3 chain A domain 3 Region: 3 - 118 Aligned: 101 Modelled: 105 Confidence: 86.3% Identity: 17% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 1pkp chain A domain 1 Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 66.7% Identity: 47% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 2uub chain E domain 1 Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 65.3% Identity: 47% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 2zkq chain E Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 55.1% Identity: 47% PDB header:ribosomal protein/rna Chain: E: PDB Molecule:rna expansion segment es6 part ii; PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 2qal chain E domain 1 Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 53.5% Identity: 33% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Translational machinery components Phyre2 PDB 1s1h chain E Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 52.7% Identity: 47% PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein s2; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. Phyre2 PDB 3bbn chain E Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 50.7% Identity: 53% PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. Phyre2 PDB 1u5t chain B domain 2 Region: 235 - 246 Aligned: 12 Modelled: 12 Confidence: 45.6% Identity: 50% Fold: DNA/RNA-binding 3-helical bundle Superfamily: "Winged helix" DNA-binding domain Family: Vacuolar sorting protein domain Phyre2 PDB 2aze chain A domain 1 Region: 144 - 209 Aligned: 48 Modelled: 66 Confidence: 45.4% Identity: 25% Fold: E2F-DP heterodimerization region Superfamily: E2F-DP heterodimerization region Family: DP dimerization segment Phyre2 PDB 2zkr chain U Region: 30 - 45 Aligned: 16 Modelled: 16 Confidence: 43.2% Identity: 31% PDB header:ribosomal protein/rna Chain: U: PDB Molecule:rna expansion segment es41; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map Phyre2 PDB 1vqo chain U domain 1 Region: 30 - 45 Aligned: 16 Modelled: 16 Confidence: 41.1% Identity: 19% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: Ribosomal protein L24e Phyre2 PDB 2xzm chain E Region: 24 - 38 Aligned: 15 Modelled: 15 Confidence: 41.1% Identity: 47% PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5 containing protein; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 Phyre2 PDB 3izc chain Z Region: 30 - 45 Aligned: 16 Modelled: 16 Confidence: 41.0% Identity: 19% PDB header:ribosome Chain: Z: PDB Molecule:60s ribosomal protein rpl24 (l24e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome Phyre2 PDB 4a1e chain T Region: 30 - 45 Aligned: 16 Modelled: 16 Confidence: 40.8% Identity: 13% PDB header:ribosome Chain: T: PDB Molecule:rpl24; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna, 5.8s rrna3 and proteins of molecule 1 Phyre2 PDB 3ccj chain U Region: 30 - 45 Aligned: 16 Modelled: 16 Confidence: 40.6% Identity: 19% PDB header:ribosome Chain: U: PDB Molecule:50s ribosomal protein l24e; PDBTitle: structure of anisomycin resistant 50s ribosomal subunit: 23s rrna2 mutation c2534u Phyre2 1 c3nzkB_ 2 c2vesA_ 3 c2go4A_ 4 d1p42a2 5 d1p42a1 6 d2bv3a3 7 d1pkpa1 8 d2uube1 9 c2zkqe_ 10 d2qale1 11 c1s1hE_ 12 c3bbnE_ 13 d1u5tb2 14 d2azea1 15 c2zkru_ 16 d1vqou1 17 c2xzmE_ 18 c3izcZ_ 19 c4a1eT_ 20 c3ccjU_ 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 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99

Detailed template information

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

1 c3nzkB_ 100.0 93 PDB header:hydrolase Chain: B: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: structure of lpxc from yersinia enterocolitica complexed with chir0902 inhibitor 2 c2vesA_ 100.0 59 PDB header:hydrolase Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: crystal structure of lpxc from pseudomonas aeruginosa2 complexed with the potent bb-78485 inhibitor 3 c2go4A_ 100.0 34 PDB header:hydrolase Chain: A: PDB Molecule:udp-3-o-[3-hydroxymyristoyl] n-acetylglucosamine PDBTitle: crystal structure of aquifex aeolicus lpxc complexed with tu-514 4 d1p42a2 100.0 33 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC 5 d1p42a1 100.0 33 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase LpxC 6 d2bv3a3 86.3 17 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 7 d1pkpa1 66.7 47 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 8 d2uube1 65.3 47 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 9 c2zkqe_ 55.1 47 PDB header:ribosomal protein/rna Chain: E: PDB Molecule:rna expansion segment es6 part ii; PDBTitle: structure of a mammalian ribosomal 40s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 10 d2qale1 53.5 33 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 11 c1s1hE_ 52.7 47 PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein s2; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1h,4 contains 40s subunit. the 60s ribosomal subunit is in file5 1s1i. 12 c3bbnE_ 50.7 53 PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 13 d1u5tb2 45.6 50 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:Vacuolar sorting protein domain 14 d2azea1 45.4 25 Fold:E2F-DP heterodimerization region Superfamily:E2F-DP heterodimerization region Family:DP dimerization segment 15 c2zkru_ 43.2 31 PDB header:ribosomal protein/rna Chain: U: PDB Molecule:rna expansion segment es41; PDBTitle: structure of a mammalian ribosomal 60s subunit within an2 80s complex obtained by docking homology models of the rna3 and proteins into an 8.7 a cryo-em map 16 d1vqou1 41.1 19 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:Ribosomal protein L24e 17 c2xzmE_ 41.1 47 PDB header:ribosome Chain: E: PDB Molecule:ribosomal protein s5 containing protein; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 1 18 c3izcZ_ 41.0 19 PDB header:ribosome Chain: Z: PDB Molecule:60s ribosomal protein rpl24 (l24e); PDBTitle: localization of the large subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 19 c4a1eT_ 40.8 13 PDB header:ribosome Chain: T: PDB Molecule:rpl24; PDBTitle: t.thermophila 60s ribosomal subunit in complex with2 initiation factor 6. this file contains 5s rrna, 5.8s rrna3 and proteins of molecule 1 20 c3ccjU_ 40.6 19 PDB header:ribosome Chain: U: PDB Molecule:50s ribosomal protein l24e; PDBTitle: structure of anisomycin resistant 50s ribosomal subunit: 23s rrna2 mutation c2534u 21 c1eg0B_ not modelled 39.4 47 PDB header:ribosome PDB COMPND: 22 c3iz5Z_ not modelled 39.3 19 PDB header:ribosome Chain: Z: PDB Molecule:60s ribosomal protein l24 (l24e); PDBTitle: localization of the large subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 23 c1p6gE_ not modelled 36.9 33 PDB header:ribosome Chain: E: PDB Molecule:30s ribosomal protein s5; PDBTitle: real space refined coordinates of the 30s subunit fitted2 into the low resolution cryo-em map of the ef-g.gtp state3 of e. coli 70s ribosome 24 d1j6xa_ not modelled 29.7 25 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 25 d2hi6a1 not modelled 28.4 20 Fold:The "swivelling" beta/beta/alpha domain Superfamily:LeuD/IlvD-like Family:AF0055-like 26 d1w07a3 not modelled 27.8 12 Fold:Acyl-CoA dehydrogenase NM domain-like Superfamily:Acyl-CoA dehydrogenase NM domain-like Family:acyl-CoA oxidase N-terminal domains 27 d1j98a_ not modelled 27.1 55 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 28 c1s1iS_ not modelled 25.9 19 PDB header:ribosome Chain: S: PDB Molecule:60s ribosomal protein l24-a; PDBTitle: structure of the ribosomal 80s-eef2-sordarin complex from2 yeast obtained by docking atomic models for rna and protein3 components into a 11.7 a cryo-em map. this file, 1s1i,4 contains 60s subunit. the 40s ribosomal subunit is in file5 1s1h. 29 d1l4db_ not modelled 25.7 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 30 d1vjea_ not modelled 24.8 35 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 31 d1j6wa_ not modelled 22.4 29 Fold:LuxS/MPP-like metallohydrolase Superfamily:LuxS/MPP-like metallohydrolase Family:Autoinducer-2 production protein LuxS 32 d2dy1a3 not modelled 22.2 19 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Translational machinery components 33 c2ddhA_ not modelled 19.9 11 PDB header:oxidoreductase Chain: A: PDB Molecule:acyl-coa oxidase; PDBTitle: crystal structure of acyl-coa oxidase complexed with 3-oh-dodecanoate 34 d1bmlc1 not modelled 18.2 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 35 c1w07A_ not modelled 17.5 13 PDB header:oxidoreductase Chain: A: PDB Molecule:acyl-coa oxidase; PDBTitle: arabidopsis thaliana acyl-coa oxidase 1 36 c2ow8f_ not modelled 16.6 47 PDB header:ribosome Chain: F: PDB Molecule: PDBTitle: crystal structure of a 70s ribosome-trna complex reveals functional2 interactions and rearrangements. this file, 2ow8, contains the 30s3 ribosome subunit, two trna, and mrna molecules. 50s ribosome subunit4 is in the file 1vsa. 37 d1gsoa2 not modelled 15.2 22 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:BC N-terminal domain-like 38 d1l4zb_ not modelled 14.5 21 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 39 d2pw9a1 not modelled 14.2 15 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:FdhD/NarQ 40 d1vh1a_ not modelled 14.1 12 Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:Cytidylytransferase 41 c2fonA_ not modelled 13.8 15 PDB header:oxidoreductase Chain: A: PDB Molecule:peroxisomal acyl-coa oxidase 1a; PDBTitle: x-ray crystal structure of leacx1, an acyl-coa oxidase from2 lycopersicon esculentum (tomato) 42 d2ddha3 not modelled 13.4 9 Fold:Acyl-CoA dehydrogenase NM domain-like Superfamily:Acyl-CoA dehydrogenase NM domain-like Family:acyl-CoA oxidase N-terminal domains 43 c3izbE_ not modelled 13.2 47 PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein rps2 (s5p); PDBTitle: localization of the small subunit ribosomal proteins into a 6.1 a2 cryo-em map of saccharomyces cerevisiae translating 80s ribosome 44 c2kyzA_ not modelled 13.0 15 PDB header:metal binding protein Chain: A: PDB Molecule:heavy metal binding protein; PDBTitle: nmr structure of heavy metal binding protein tm0320 from thermotoga2 maritima 45 c3iz6E_ not modelled 13.0 40 PDB header:ribosome Chain: E: PDB Molecule:40s ribosomal protein s2 (s5p); PDBTitle: localization of the small subunit ribosomal proteins into a 5.5 a2 cryo-em map of triticum aestivum translating 80s ribosome 46 c3m05A_ not modelled 12.9 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein pepe_1480; PDBTitle: the crystal structure of a functionally unknown protein2 pepe_1480 from pediococcus pentosaceus atcc 25745 47 d1pvxa_ not modelled 12.5 23 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Xylanase/endoglucanase 11/12 48 d1v54i_ not modelled 12.4 26 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIc Family:Mitochondrial cytochrome c oxidase subunit VIc 49 d1vh3a_ not modelled 12.2 12 Fold:Nucleotide-diphospho-sugar transferases Superfamily:Nucleotide-diphospho-sugar transferases Family:Cytidylytransferase 50 d1vaea_ not modelled 11.9 19 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 51 c2yuyA_ not modelled 11.2 22 PDB header:signaling protein Chain: A: PDB Molecule:rho gtpase activating protein 21; PDBTitle: solution structure of pdz domain of rho gtpase activating2 protein 21 52 d1ky9b2 not modelled 11.0 24 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:HtrA-like serine proteases 53 c3m0dC_ not modelled 10.6 30 PDB header:signaling protein Chain: C: PDB Molecule:tnf receptor-associated factor 1; PDBTitle: crystal structure of the traf1:traf2:ciap2 complex 54 d1gpca_ not modelled 10.5 17 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Phage ssDNA-binding proteins 55 c2vsvB_ not modelled 10.1 15 PDB header:protein-binding Chain: B: PDB Molecule:rhophilin-2; PDBTitle: crystal structure of the pdz domain of human rhophilin-2 56 c2lfcA_ not modelled 10.1 33 PDB header:oxidoreductase Chain: A: PDB Molecule:fumarate reductase, flavoprotein subunit; PDBTitle: solution nmr structure of fumarate reductase flavoprotein subunit from2 lactobacillus plantarum, northeast structural genomics consortium3 target lpr145j 57 d1u3ba2 not modelled 10.1 22 Fold:PDZ domain-like Superfamily:PDZ domain-like Family:PDZ domain 58 d1y0pa3 not modelled 9.9 42 Fold:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Superfamily:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Family:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain 59 d1s1ma2 not modelled 9.3 20 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 60 c1n0fF_ not modelled 9.1 11 PDB header:biosynthetic protein Chain: F: PDB Molecule:protein mraz; PDBTitle: crystal structure of a cell division and cell wall2 biosynthesis protein upf0040 from mycoplasma pneumoniae:3 indication of a novel fold with a possible new conserved4 sequence motif 61 d1v97a2 not modelled 9.0 39 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 62 c2krgA_ not modelled 8.7 20 PDB header:signaling protein Chain: A: PDB Molecule:na(+)/h(+) exchange regulatory cofactor nhe-rf1; PDBTitle: solution structure of human sodium/ hydrogen exchange2 regulatory factor 1(150-358) 63 c2qdrA_ not modelled 8.5 22 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative dioxygenase (npun_f5605) from nostoc2 punctiforme pcc 73102 at 2.60 a resolution 64 c2dcoA_ not modelled 8.4 56 PDB header:membrane protein Chain: A: PDB Molecule:s1p4 first extracellular loop peptidomimetic; PDBTitle: s1p4 first extracellular loop peptidomimetic 65 d1nz8a_ not modelled 8.3 22 Fold:Ferredoxin-like Superfamily:N-utilization substance G protein NusG, N-terminal domain Family:N-utilization substance G protein NusG, N-terminal domain 66 c2kr7A_ not modelled 8.2 32 PDB header:isomerase Chain: A: PDB Molecule:fkbp-type peptidyl-prolyl cis-trans isomerase slyd; PDBTitle: solution structure of helicobacter pylori slyd 67 d1xpma2 not modelled 8.1 18 Fold:Thiolase-like Superfamily:Thiolase-like Family:Chalcone synthase-like 68 d1qo8a3 not modelled 8.0 32 Fold:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Superfamily:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Family:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain 69 d1n62a2 not modelled 8.0 27 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 70 d1nfpa_ not modelled 8.0 14 Fold:TIM beta/alpha-barrel Superfamily:Bacterial luciferase-like Family:Non-fluorescent flavoprotein (luxF, FP390) 71 c3smaD_ not modelled 7.9 26 PDB header:transferase Chain: D: PDB Molecule:frbf; PDBTitle: a new n-acetyltransferase fold in the structure and mechanism of the2 phosphonate biosynthetic enzyme frbf 72 c2ad5B_ not modelled 7.9 20 PDB header:ligase Chain: B: PDB Molecule:ctp synthase; PDBTitle: mechanisms of feedback regulation and drug resistance of ctp2 synthetases: structure of the e. coli ctps/ctp complex at 2.8-3 angstrom resolution. 73 d1ynaa_ not modelled 7.8 16 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Xylanase/endoglucanase 11/12 74 d1gpma2 not modelled 7.6 23 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:Class I glutamine amidotransferases (GAT) 75 d1jvna1 not modelled 7.6 19 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Histidine biosynthesis enzymes 76 d1d4ca3 not modelled 7.5 32 Fold:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Superfamily:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain Family:Succinate dehydrogenase/fumarate reductase flavoprotein, catalytic domain 77 c2qktB_ not modelled 7.4 15 PDB header:peptide binding protein Chain: B: PDB Molecule:inactivation-no-after-potential d protein; PDBTitle: crystal structure of the 5th pdz domain of inad 78 c4a8aI_ not modelled 7.2 35 PDB header:hydrolase/hydrolase Chain: I: PDB Molecule:periplasmic ph-dependent serine endoprotease degq; PDBTitle: asymmetric cryo-em reconstruction of e. coli degq 12-mer in complex2 with lysozyme 79 d1vq2a_ not modelled 7.2 22 Fold:Cytidine deaminase-like Superfamily:Cytidine deaminase-like Family:Deoxycytidylate deaminase-like 80 c2hfpB_ not modelled 7.2 80 PDB header:transcription Chain: B: PDB Molecule:src peptide fragment; PDBTitle: crystal structure of ppar gamma with n-sulfonyl-2-indole2 carboxamide ligands 81 c3kmgE_ not modelled 7.1 80 PDB header:transcription Chain: E: PDB Molecule:steroid receptor coactivator-1; PDBTitle: the x-ray crystal structure of ppar-gamma in complex with an indole2 derivative modulator, gsk538, and an src-1 peptide 82 c2x7jA_ not modelled 7.1 17 PDB header:transferase Chain: A: PDB Molecule:2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene PDBTitle: structure of the menaquinone biosynthesis protein mend from2 bacillus subtilis 83 c1fm6E_ not modelled 7.1 80 PDB header:transcription Chain: E: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.1 angstrom resolution crystal structure of the2 heterodimer of the human rxralpha and ppargamma ligand3 binding domains respectively bound with 9-cis retinoic4 acid and rosiglitazone and co-activator peptides. 84 c1k74E_ not modelled 7.1 80 PDB header:transcription Chain: E: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.3 angstrom resolution crystal structure of the2 heterodimer of the human ppargamma and rxralpha ligand3 binding domains respectively bound with gw409544 and 9-cis4 retinoic acid and co-activator peptides. 85 c1fm9E_ not modelled 7.1 80 PDB header:transcription Chain: E: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.1 angstrom resolution crystal structure of the2 heterodimer of the human rxralpha and ppargamma ligand3 binding domains respectively bound with 9-cis retinoic4 acid and gi262570 and co-activator peptides. 86 d1rm6c2 not modelled 7.0 36 Fold:beta-Grasp (ubiquitin-like) Superfamily:2Fe-2S ferredoxin-like Family:2Fe-2S ferredoxin domains from multidomain proteins 87 c1p8dC_ not modelled 7.0 80 PDB header:membrane protein/protein binding Chain: C: PDB Molecule:nuclear receptor coactivator 1 isoform 3; PDBTitle: x-ray crystal structure of lxr ligand binding domain with 24(s),25-2 epoxycholesterol 88 d1ukka_ not modelled 7.0 40 Fold:OsmC-like Superfamily:OsmC-like Family:Ohr/OsmC resistance proteins 89 c1fm6V_ not modelled 7.0 80 PDB header:transcription Chain: V: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.1 angstrom resolution crystal structure of the2 heterodimer of the human rxralpha and ppargamma ligand3 binding domains respectively bound with 9-cis retinoic4 acid and rosiglitazone and co-activator peptides. 90 d1vcoa2 not modelled 7.0 18 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:Nitrogenase iron protein-like 91 c3ipqB_ not modelled 6.9 80 PDB header:transcription Chain: B: PDB Molecule:nuclear receptor coactivator 1; PDBTitle: x-ray structure of gw3965 synthetic agonist bound to the lxr-alpha 92 c3ipuD_ not modelled 6.9 80 PDB header:transcription Chain: D: PDB Molecule:nuclear receptor coactivator 1; PDBTitle: x-ray structure of benzisoxazole urea synthetic agonist bound to the2 lxr-alpha 93 c1nrlC_ not modelled 6.9 80 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor coactivator 1 isoform 3; PDBTitle: crystal structure of the human pxr-lbd in complex with an2 src-1 coactivator peptide and sr12813 94 c3ipsD_ not modelled 6.9 80 PDB header:transcription Chain: D: PDB Molecule:nuclear receptor coactivator 1; PDBTitle: x-ray structure of benzisoxazole synthetic agonist bound to the lxr-2 alpha 95 c3ipuC_ not modelled 6.9 80 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor coactivator 1; PDBTitle: x-ray structure of benzisoxazole urea synthetic agonist bound to the2 lxr-alpha 96 c3ipsC_ not modelled 6.9 80 PDB header:transcription Chain: C: PDB Molecule:nuclear receptor coactivator 1; PDBTitle: x-ray structure of benzisoxazole synthetic agonist bound to the lxr-2 alpha 97 c1nrlD_ not modelled 6.9 80 PDB header:transcription Chain: D: PDB Molecule:nuclear receptor coactivator 1 isoform 3; PDBTitle: crystal structure of the human pxr-lbd in complex with an2 src-1 coactivator peptide and sr12813 98 c1fm6Y_ not modelled 6.9 80 PDB header:transcription Chain: Y: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.1 angstrom resolution crystal structure of the2 heterodimer of the human rxralpha and ppargamma ligand3 binding domains respectively bound with 9-cis retinoic4 acid and rosiglitazone and co-activator peptides. 99 c1k7lB_ not modelled 6.9 80 PDB header:transcription Chain: B: PDB Molecule:steroid receptor coactivator; PDBTitle: the 2.5 angstrom resolution crystal structure of the human2 pparalpha ligand binding domain bound with gw409544 and a3 co-activator peptide.

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