Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	G	M	E	N	Y	N	P	P	Q	E	P	W	L	V	I	L	Y	Q	D	D	H	I	M	V	V	N	K	P	S	G	L	L	S	V	P	G	R	L	E	E	H	K	D	S	V	M	T	R	I	Q	R	D	Y	P	Q	A	E	S	V
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		H	R	L	D	M	A	T	S	G	V	I	V	V	A	L	T	K	A	A	E	R	E	L	K	R	Q	F	R	E	R	E	P	K	K	Q	Y	V	A	R	V	W	G	H	P	S	P	A	E	G	L	V	D	L	P	L	I	C	D	W	P
Secondary structure
SS confidence
Disorder																														?		?																												?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		N	R	P	K	Q	K	V	C	Y	E	T	G	K	P	A	Q	T	E	Y	E	V	V	E	Y	A	A	D	N	T	A	R	V	V	L	K	P	I	T	G	R	S	H	Q	L	R	V	H	M	L	A	L	G	H	P	I	L	G	D	R	F
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.
Sequence		Y	A	S	P	E	A	R	A	M	A	P	R	L	L	L	H	A	E	M	L	T	I	T	H	P	A	Y	G	N	S	M	T	F	K	A	P	A	D	F
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 2i82 chain D Region: 4 - 219 Aligned: 216 Modelled: 216 Confidence: 100.0% Identity: 97% PDB header:lyase/rna Chain: D: PDB Molecule:ribosomal large subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridine synthase rlua: indirect2 sequence readout through protein-induced rna structure Phyre2 PDB 1v9f chain A Region: 8 - 218 Aligned: 208 Modelled: 211 Confidence: 100.0% Identity: 38% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 1v9f chain A Region: 8 - 218 Aligned: 208 Modelled: 211 Confidence: 100.0% Identity: 38% PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: crystal structure of catalytic domain of pseudouridine2 synthase rlud from escherichia coli Phyre2 PDB 1qyu chain A Region: 8 - 218 Aligned: 208 Modelled: 206 Confidence: 100.0% Identity: 36% PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: structure of the catalytic domain of 23s rrna pseudouridine2 synthase rlud Phyre2 PDB 1v9k chain A Region: 16 - 218 Aligned: 202 Modelled: 199 Confidence: 100.0% Identity: 39% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 1vio chain A Region: 11 - 192 Aligned: 163 Modelled: 170 Confidence: 100.0% Identity: 18% PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridylate synthase Phyre2 PDB 1ksk chain A Region: 16 - 183 Aligned: 151 Modelled: 156 Confidence: 100.0% Identity: 16% PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: structure of rsua Phyre2 PDB 2oml chain A Region: 19 - 183 Aligned: 159 Modelled: 163 Confidence: 100.0% Identity: 18% PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue Phyre2 PDB 2olw chain B Region: 21 - 183 Aligned: 157 Modelled: 163 Confidence: 100.0% Identity: 18% PDB header:isomerase Chain: B: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue Phyre2 PDB 3dh3 chain C Region: 15 - 183 Aligned: 148 Modelled: 153 Confidence: 100.0% Identity: 14% PDB header:isomerase/rna Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate Phyre2 PDB 1vio chain A domain 1 Region: 19 - 183 Aligned: 146 Modelled: 153 Confidence: 100.0% Identity: 19% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 1ksk chain A domain 4 Region: 21 - 182 Aligned: 145 Modelled: 150 Confidence: 100.0% Identity: 17% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase RsuA/RluD Phyre2 PDB 2gml chain A Region: 20 - 181 Aligned: 141 Modelled: 146 Confidence: 100.0% Identity: 16% PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of catalytic domain of e.coli rluf Phyre2 PDB 1k8w chain A domain 5 Region: 21 - 101 Aligned: 70 Modelled: 81 Confidence: 97.6% Identity: 17% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase II TruB Phyre2 PDB 2ey4 chain A domain 2 Region: 20 - 101 Aligned: 69 Modelled: 80 Confidence: 97.6% Identity: 30% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase II TruB Phyre2 PDB 2apo chain A domain 2 Region: 21 - 101 Aligned: 68 Modelled: 81 Confidence: 97.5% Identity: 32% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase II TruB Phyre2 PDB 1sgv chain A domain 2 Region: 20 - 101 Aligned: 69 Modelled: 82 Confidence: 97.5% Identity: 29% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase II TruB Phyre2 PDB 2ey4 chain A Region: 20 - 101 Aligned: 69 Modelled: 82 Confidence: 97.5% Identity: 32% PDB header:isomerase/biosynthetic protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of a cbf5-nop10-gar1 complex Phyre2 PDB 1r3e chain A domain 2 Region: 21 - 101 Aligned: 68 Modelled: 81 Confidence: 97.5% Identity: 22% Fold: Pseudouridine synthase Superfamily: Pseudouridine synthase Family: Pseudouridine synthase II TruB Phyre2 PDB 2apo chain A Region: 20 - 101 Aligned: 69 Modelled: 82 Confidence: 97.3% Identity: 30% PDB header:isomerase/rna binding protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of the methanococcus jannaschii cbf52 nop10 complex Phyre2 1 c2i82D_ 2 d1v9fa_ 3 c1v9fA_ 4 c1qyuA_ 5 d1v9ka_ 6 c1vioA_ 7 c1kskA_ 8 c2omlA_ 9 c2olwB_ 10 c3dh3C_ 11 d1vioa1 12 d1kska4 13 c2gmlA_ 14 d1k8wa5 15 d2ey4a2 16 d2apoa2 17 d1sgva2 18 c2ey4A_ 19 d1r3ea2 20 c2apoA_ 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

Detailed template information

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

1 c2i82D_ 100.0 97 PDB header:lyase/rna Chain: D: PDB Molecule:ribosomal large subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridine synthase rlua: indirect2 sequence readout through protein-induced rna structure 2 d1v9fa_ 100.0 38 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD 3 c1v9fA_ 100.0 38 PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: crystal structure of catalytic domain of pseudouridine2 synthase rlud from escherichia coli 4 c1qyuA_ 100.0 36 PDB header:lyase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase d; PDBTitle: structure of the catalytic domain of 23s rrna pseudouridine2 synthase rlud 5 d1v9ka_ 100.0 39 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD 6 c1vioA_ 100.0 18 PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: crystal structure of pseudouridylate synthase 7 c1kskA_ 100.0 16 PDB header:lyase Chain: A: PDB Molecule:ribosomal small subunit pseudouridine synthase a; PDBTitle: structure of rsua 8 c2omlA_ 100.0 18 PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue 9 c2olwB_ 100.0 18 PDB header:isomerase Chain: B: PDB Molecule:ribosomal large subunit pseudouridine synthase e; PDBTitle: crystal structure of e. coli pseudouridine synthase rlue 10 c3dh3C_ 100.0 14 PDB header:isomerase/rna Chain: C: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of rluf in complex with a 22 nucleotide2 rna substrate 11 d1vioa1 100.0 19 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD 12 d1kska4 100.0 17 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase RsuA/RluD 13 c2gmlA_ 100.0 16 PDB header:isomerase Chain: A: PDB Molecule:ribosomal large subunit pseudouridine synthase f; PDBTitle: crystal structure of catalytic domain of e.coli rluf 14 d1k8wa5 97.6 17 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 15 d2ey4a2 97.6 30 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 16 d2apoa2 97.5 32 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 17 d1sgva2 97.5 29 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 18 c2ey4A_ 97.5 32 PDB header:isomerase/biosynthetic protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of a cbf5-nop10-gar1 complex 19 d1r3ea2 97.5 22 Fold:Pseudouridine synthase Superfamily:Pseudouridine synthase Family:Pseudouridine synthase II TruB 20 c2apoA_ 97.3 30 PDB header:isomerase/rna binding protein Chain: A: PDB Molecule:probable trna pseudouridine synthase b; PDBTitle: crystal structure of the methanococcus jannaschii cbf52 nop10 complex 21 c3uaiA_ not modelled 97.3 29 PDB header:isomerase/chaperone Chain: A: PDB Molecule:h/aca ribonucleoprotein complex subunit 4; PDBTitle: structure of the shq1-cbf5-nop10-gar1 complex from saccharomyces2 cerevisiae 22 c1k8wA_ not modelled 97.2 19 PDB header:lyase/rna Chain: A: PDB Molecule:trna pseudouridine synthase b; PDBTitle: crystal structure of the e. coli pseudouridine synthase2 trub bound to a t stem-loop rna 23 c1sgvA_ not modelled 97.2 28 PDB header:lyase Chain: A: PDB Molecule:trna pseudouridine synthase b; PDBTitle: structure of trna psi55 pseudouridine synthase (trub) 24 c1ze2B_ not modelled 95.6 27 PDB header:lyase/rna Chain: B: PDB Molecule:trna pseudouridine synthase b; PDBTitle: conformational change of pseudouridine 55 synthase upon its2 association with rna substrate 25 c2k6pA_ not modelled 94.6 14 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein hp_1423; PDBTitle: solution structure of hypothetical protein, hp1423 26 c1f5nA_ not modelled 31.0 12 PDB header:signaling protein Chain: A: PDB Molecule:interferon-induced guanylate-binding protein 1; PDBTitle: human guanylate binding protein-1 in complex with the gtp2 analogue, gmppnp. 27 c2zodB_ not modelled 23.0 16 PDB header:transferase Chain: B: PDB Molecule:selenide, water dikinase; PDBTitle: crystal structure of selenophosphate synthetase from2 aquifex aeolicus 28 d2zoda2 not modelled 22.1 17 Fold:PurM C-terminal domain-like Superfamily:PurM C-terminal domain-like Family:PurM C-terminal domain-like 29 c2zauB_ not modelled 21.1 23 PDB header:transferase Chain: B: PDB Molecule:selenide, water dikinase; PDBTitle: crystal structure of an n-terminally truncated2 selenophosphate synthetase from aquifex aeolicus 30 c1mzwB_ not modelled 16.9 38 PDB header:isomerase Chain: B: PDB Molecule:u4/u6 snrnp 60kda protein; PDBTitle: crystal structure of a u4/u6 snrnp complex between human2 spliceosomal cyclophilin h and a u4/u6-60k peptide 31 d1vjpa1 not modelled 16.8 15 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 32 d1f46a_ not modelled 14.6 18 Fold:TBP-like Superfamily:Cell-division protein ZipA, C-terminal domain Family:Cell-division protein ZipA, C-terminal domain 33 d1emsa1 not modelled 13.2 29 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 34 d1gr0a1 not modelled 12.4 21 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:Glyceraldehyde-3-phosphate dehydrogenase-like, N-terminal domain 35 d1fita_ not modelled 11.7 6 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 36 d1k8ga2 not modelled 11.6 14 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 37 c2p14A_ not modelled 11.1 10 PDB header:hydrolase Chain: A: PDB Molecule:heterodimeric restriction endonuclease r.bspd6i small PDBTitle: crystal structure of small subunit (r.bspd6i2) of the heterodimeric2 restriction endonuclease r.bspd6i 38 d1jb7a2 not modelled 10.9 14 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Single strand DNA-binding domain, SSB 39 c3n1tE_ not modelled 9.7 38 PDB header:hydrolase Chain: E: PDB Molecule:hit-like protein hint; PDBTitle: crystal structure of the h101a mutant echint gmp complex 40 d1rzya_ not modelled 9.7 25 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins 41 c1u1iC_ not modelled 9.5 18 PDB header:isomerase Chain: C: PDB Molecule:myo-inositol-1-phosphate synthase; PDBTitle: myo-inositol phosphate synthase mips from a. fulgidus 42 c3l7xA_ not modelled 9.3 13 PDB header:cell cycle Chain: A: PDB Molecule:putative hit-like protein involved in cell-cycle PDBTitle: the crystal structure of smu.412c from streptococcus mutans ua159 43 d1okia1 not modelled 8.1 20 Fold:gamma-Crystallin-like Superfamily:gamma-Crystallin-like Family:Crystallins/Ca-binding development proteins 44 c2lkyA_ not modelled 7.7 27 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of msmeg_1053, the second duf3349 annotated protein2 in the genome of mycobacterium smegmatis, seattle structural genomics3 center for infectious disease target mysma.17112.b 45 c1gr0A_ not modelled 7.5 25 PDB header:isomerase Chain: A: PDB Molecule:inositol-3-phosphate synthase; PDBTitle: myo-inositol 1-phosphate synthase from mycobacterium2 tuberculosis in complex with nad and zinc. 46 c2do5A_ not modelled 7.5 31 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:splicing factor 3b subunit 2; PDBTitle: solution structure of the sap domain of human splicing2 factor 3b subunit 2 47 c3cinA_ not modelled 7.4 16 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 48 c3o0mB_ not modelled 7.2 13 PDB header:hydrolase Chain: B: PDB Molecule:hit family protein; PDBTitle: crystal structure of a zn-bound histidine triad family protein from2 mycobacterium smegmatis 49 d1guqa2 not modelled 7.2 17 Fold:HIT-like Superfamily:HIT-like Family:Hexose-1-phosphate uridylyltransferase 50 d2al1a1 not modelled 6.8 16 Fold:TIM beta/alpha-barrel Superfamily:Enolase C-terminal domain-like Family:Enolase 51 c2oi2A_ not modelled 6.5 17 PDB header:transferase Chain: A: PDB Molecule:mevalonate kinase; PDBTitle: streptococcus pneumoniae mevalonate kinase in complex with2 diphosphomevalonate 52 d2aaaa1 not modelled 6.4 21 Fold:Glycosyl hydrolase domain Superfamily:Glycosyl hydrolase domain Family:alpha-Amylases, C-terminal beta-sheet domain 53 c3p0tB_ not modelled 6.4 25 PDB header:unknown function Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of an hit-like protein from mycobacterium2 paratuberculosis 54 c2kvcA_ not modelled 6.0 27 PDB header:unknown function Chain: A: PDB Molecule:putative uncharacterized protein; PDBTitle: solution structure of the mycobacterium tuberculosis protein rv0543c,2 a member of the duf3349 superfamily. seattle structural genomics3 center for infectious disease target mytud.17112.a 55 c1emsB_ not modelled 5.8 33 PDB header:antitumor protein Chain: B: PDB Molecule:nit-fragile histidine triad fusion protein; PDBTitle: crystal structure of the c. elegans nitfhit protein 56 c2voiB_ not modelled 5.8 27 PDB header:apoptosis Chain: B: PDB Molecule:bh3-interacting domain death agonist p13; PDBTitle: structure of mouse a1 bound to the bid bh3-domain 57 d2dk4a1 not modelled 5.7 23 Fold:LEM/SAP HeH motif Superfamily:PRP4-like Family:PRP4-like 58 d2oika1 not modelled 5.5 50 Fold:HIT-like Superfamily:HIT-like Family:HIT (HINT, histidine triad) family of protein kinase-interacting proteins

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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