Secondary structure and disorder prediction

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Sequence		M	E	T	T	K	P	S	F	Q	D	V	L	E	F	V	R	L	F	R	R	K	N	K	L	Q	R	E	I	Q	D	V	E	K	K	I	R	D	N	Q	K	R	V	L	L	L	D	N	L	S	D	Y	I	K	P	G	M	S	V	E	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																												?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.
Sequence		I	Q	G	I	I	A	S	M	K	G	D	Y	E	D	R	V	D	D	Y	I	I	K	N	A	E	L	S	K	E	R	R	D	I	S	K	K	L	K	A	M	G	E	M	K	N	G	E	A	K
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 2gsv chain A domain 1 Region: 44 - 93 Aligned: 50 Modelled: 50 Confidence: 52.5% Identity: 22% Fold: Open three-helical up-and-down bundle Superfamily: YvfG-like Family: YvfG-like Phyre2 PDB 3khe chain B Region: 4 - 29 Aligned: 26 Modelled: 26 Confidence: 21.0% Identity: 19% PDB header:metal binding protein Chain: B: PDB Molecule:calmodulin-like domain protein kinase isoform 3; PDBTitle: crystal structure of the calcium-loaded calmodulin-like domain of the2 cdpk, 541.m00134 from toxoplasma gondii Phyre2 PDB 2fvh chain B Region: 43 - 63 Aligned: 21 Modelled: 21 Confidence: 20.8% Identity: 14% PDB header:hydrolase Chain: B: PDB Molecule:urease gamma subunit; PDBTitle: crystal structure of rv1848, a urease gamma subunit urea (urea2 amidohydrolase), from mycobacterium tuberculosis Phyre2 PDB 1e7l chain A domain 2 Region: 32 - 57 Aligned: 26 Modelled: 26 Confidence: 20.2% Identity: 27% Fold: His-Me finger endonucleases Superfamily: His-Me finger endonucleases Family: Recombination endonuclease VII, N-terminal domain Phyre2 PDB 4ubp chain A Region: 43 - 61 Aligned: 19 Modelled: 19 Confidence: 19.6% Identity: 11% Fold: Urease, gamma-subunit Superfamily: Urease, gamma-subunit Family: Urease, gamma-subunit Phyre2 PDB 1ejx chain A Region: 43 - 61 Aligned: 19 Modelled: 19 Confidence: 19.0% Identity: 21% Fold: Urease, gamma-subunit Superfamily: Urease, gamma-subunit Family: Urease, gamma-subunit Phyre2 PDB 1zta chain A Region: 73 - 89 Aligned: 17 Modelled: 17 Confidence: 16.2% Identity: 41% PDB header:dna-binding motif Chain: A: PDB Molecule:leucine zipper monomer; PDBTitle: the solution structure of a leucine-zipper motif peptide Phyre2 PDB 2f8m chain B Region: 37 - 58 Aligned: 22 Modelled: 22 Confidence: 15.8% Identity: 18% PDB header:isomerase Chain: B: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: ribose 5-phosphate isomerase from plasmodium falciparum Phyre2 PDB 1zdb chain A Region: 54 - 71 Aligned: 18 Modelled: 18 Confidence: 15.8% Identity: 28% PDB header:igg binding domain Chain: A: PDB Molecule:mini protein a domain, z38; PDBTitle: phage-selected mini protein a domain, z38, nmr, minimized2 mean structure Phyre2 PDB 1r8j chain A domain 1 Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 14.1% Identity: 20% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 1sv1 chain A Region: 55 - 79 Aligned: 25 Modelled: 25 Confidence: 13.7% Identity: 20% Fold: KaiA/RbsU domain Superfamily: KaiA/RbsU domain Family: Circadian clock protein KaiA, C-terminal domain Phyre2 PDB 3l19 chain B Region: 6 - 29 Aligned: 24 Modelled: 24 Confidence: 13.1% Identity: 29% PDB header:transferase Chain: B: PDB Molecule:calcium/calmodulin dependent protein kinase with a kinase PDBTitle: crystal structure of calcium binding domain of cpcdpk3, cgd5_820 Phyre2 PDB 2vz4 chain A Region: 38 - 97 Aligned: 59 Modelled: 60 Confidence: 12.4% Identity: 8% PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional activator tipa; PDBTitle: the n-terminal domain of merr-like protein tipal bound to2 promoter dna Phyre2 PDB 1y2i chain C Region: 56 - 108 Aligned: 50 Modelled: 53 Confidence: 12.0% Identity: 18% PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein s0862; PDBTitle: crystal structure of mcsg target apc27401 from shigella2 flexneri Phyre2 PDB 1y2i chain A Region: 56 - 108 Aligned: 50 Modelled: 53 Confidence: 12.0% Identity: 18% Fold: Dodecin subunit-like Superfamily: YbjQ-like Family: YbjQ-like Phyre2 PDB 1oey chain J Region: 3 - 17 Aligned: 15 Modelled: 15 Confidence: 11.9% Identity: 33% Fold: beta-Grasp (ubiquitin-like) Superfamily: CAD & PB1 domains Family: PB1 domain Phyre2 PDB 1nvp chain B Region: 61 - 74 Aligned: 14 Modelled: 14 Confidence: 11.8% Identity: 21% PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex Phyre2 PDB 1nvp chain B Region: 61 - 74 Aligned: 14 Modelled: 14 Confidence: 11.8% Identity: 21% Fold: Transcription factor IIA (TFIIA), alpha-helical domain Superfamily: Transcription factor IIA (TFIIA), alpha-helical domain Family: Transcription factor IIA (TFIIA), alpha-helical domain Phyre2 PDB 1ce0 chain B Region: 73 - 89 Aligned: 17 Modelled: 17 Confidence: 11.0% Identity: 29% PDB header:hiv-1 envelope protein Chain: B: PDB Molecule:protein (leucine zipper model h38-p1); PDBTitle: trimerization specificity in hiv-1 gp41: analysis with a2 gcn4 leucine zipper model Phyre2 PDB 3mej chain A Region: 9 - 70 Aligned: 55 Modelled: 62 Confidence: 10.8% Identity: 18% PDB header:transcriptional regulator Chain: A: PDB Molecule:transcriptional regulator ywtf; PDBTitle: crystal structure of putative transcriptional regulator ywtf from2 bacillus subtilis, northeast structural genomics consortium target3 sr736 Phyre2 1 d2gsva1 2 c3kheB_ 3 c2fvhB_ 4 d1e7la2 5 d4ubpa_ 6 d1ejxa_ 7 c1ztaA_ 8 c2f8mB_ 9 c1zdbA_ 10 d1r8ja1 11 d1sv1a_ 12 c3l19B_ 13 c2vz4A_ 14 c1y2iC_ 15 d1y2ia_ 16 d1oeyj_ 17 c1nvpB_ 18 d1nvpb_ 19 c1ce0B_ 20 c3mejA_ 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

Detailed template information

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

1 d2gsva1 52.5 22 Fold:Open three-helical up-and-down bundle Superfamily:YvfG-like Family:YvfG-like 2 c3kheB_ 21.0 19 PDB header:metal binding protein Chain: B: PDB Molecule:calmodulin-like domain protein kinase isoform 3; PDBTitle: crystal structure of the calcium-loaded calmodulin-like domain of the2 cdpk, 541.m00134 from toxoplasma gondii 3 c2fvhB_ 20.8 14 PDB header:hydrolase Chain: B: PDB Molecule:urease gamma subunit; PDBTitle: crystal structure of rv1848, a urease gamma subunit urea (urea2 amidohydrolase), from mycobacterium tuberculosis 4 d1e7la2 20.2 27 Fold:His-Me finger endonucleases Superfamily:His-Me finger endonucleases Family:Recombination endonuclease VII, N-terminal domain 5 d4ubpa_ 19.6 11 Fold:Urease, gamma-subunit Superfamily:Urease, gamma-subunit Family:Urease, gamma-subunit 6 d1ejxa_ 19.0 21 Fold:Urease, gamma-subunit Superfamily:Urease, gamma-subunit Family:Urease, gamma-subunit 7 c1ztaA_ 16.2 41 PDB header:dna-binding motif Chain: A: PDB Molecule:leucine zipper monomer; PDBTitle: the solution structure of a leucine-zipper motif peptide 8 c2f8mB_ 15.8 18 PDB header:isomerase Chain: B: PDB Molecule:ribose 5-phosphate isomerase; PDBTitle: ribose 5-phosphate isomerase from plasmodium falciparum 9 c1zdbA_ 15.8 28 PDB header:igg binding domain Chain: A: PDB Molecule:mini protein a domain, z38; PDBTitle: phage-selected mini protein a domain, z38, nmr, minimized2 mean structure 10 d1r8ja1 14.1 20 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 11 d1sv1a_ 13.7 20 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 12 c3l19B_ 13.1 29 PDB header:transferase Chain: B: PDB Molecule:calcium/calmodulin dependent protein kinase with a kinase PDBTitle: crystal structure of calcium binding domain of cpcdpk3, cgd5_820 13 c2vz4A_ 12.4 8 PDB header:transcription Chain: A: PDB Molecule:hth-type transcriptional activator tipa; PDBTitle: the n-terminal domain of merr-like protein tipal bound to2 promoter dna 14 c1y2iC_ 12.0 18 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:hypothetical protein s0862; PDBTitle: crystal structure of mcsg target apc27401 from shigella2 flexneri 15 d1y2ia_ 12.0 18 Fold:Dodecin subunit-like Superfamily:YbjQ-like Family:YbjQ-like 16 d1oeyj_ 11.9 33 Fold:beta-Grasp (ubiquitin-like) Superfamily:CAD & PB1 domains Family:PB1 domain 17 c1nvpB_ 11.8 21 PDB header:transcription/dna Chain: B: PDB Molecule:transcription initiation factor iia alpha chain; PDBTitle: human tfiia/tbp/dna complex 18 d1nvpb_ 11.8 21 Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain 19 c1ce0B_ 11.0 29 PDB header:hiv-1 envelope protein Chain: B: PDB Molecule:protein (leucine zipper model h38-p1); PDBTitle: trimerization specificity in hiv-1 gp41: analysis with a2 gcn4 leucine zipper model 20 c3mejA_ 10.8 18 PDB header:transcriptional regulator Chain: A: PDB Molecule:transcriptional regulator ywtf; PDBTitle: crystal structure of putative transcriptional regulator ywtf from2 bacillus subtilis, northeast structural genomics consortium target3 sr736 21 c2oqqB_ not modelled 10.7 50 PDB header:transcription Chain: B: PDB Molecule:transcription factor hy5; PDBTitle: crystal structure of hy5 leucine zipper homodimer from2 arabidopsis thaliana 22 d2gr7a1 not modelled 10.6 23 Fold:Pili subunits Superfamily:Pili subunits Family:YadA C-terminal domain-like 23 c2gr7C_ not modelled 10.6 23 PDB header:membrane protein Chain: C: PDB Molecule:adhesin; PDBTitle: hia 992-1098 24 c3hh0C_ not modelled 10.5 23 PDB header:transcription regulator Chain: C: PDB Molecule:transcriptional regulator, merr family; PDBTitle: crystal strucure of a transcriptional regulator, merr family2 from bacillus cereus 25 d1v8ga1 not modelled 10.5 19 Fold:Methionine synthase domain-like Superfamily:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain Family:Nucleoside phosphorylase/phosphoribosyltransferase N-terminal domain 26 d1nh2b_ not modelled 10.2 14 Fold:Transcription factor IIA (TFIIA), alpha-helical domain Superfamily:Transcription factor IIA (TFIIA), alpha-helical domain Family:Transcription factor IIA (TFIIA), alpha-helical domain 27 c2jd3B_ not modelled 10.1 14 PDB header:dna binding protein Chain: B: PDB Molecule:stbb protein; PDBTitle: parr from plasmid pb171 28 d1edla_ not modelled 10.0 33 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 29 c3kltB_ not modelled 9.9 13 PDB header:structural protein Chain: B: PDB Molecule:vimentin; PDBTitle: crystal structure of a vimentin fragment 30 d1u2ca2 not modelled 8.9 17 Fold:Dystroglycan, domain 2 Superfamily:Dystroglycan, domain 2 Family:Dystroglycan, domain 2 31 c2bcxB_ not modelled 8.6 63 PDB header:calcium binding protein Chain: B: PDB Molecule:ryanodine receptor 1; PDBTitle: crystal structure of calmodulin in complex with a ryanodine2 receptor peptide 32 c2o7hF_ not modelled 8.5 35 PDB header:transcription Chain: F: PDB Molecule:general control protein gcn4; PDBTitle: crystal structure of trimeric coiled coil gcn4 leucine zipper 33 c1ij2C_ not modelled 8.4 35 PDB header:transcription Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position 34 c3k7zB_ not modelled 8.4 35 PDB header:dna binding protein Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 35 c3k7zA_ not modelled 8.4 35 PDB header:dna binding protein Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 36 c1rb6C_ not modelled 8.4 35 PDB header:dna binding protein Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: antiparallel trimer of gcn4-leucine zipper core mutant as2 n16a tetragonal form 37 c1swiA_ not modelled 8.4 35 PDB header:leucine zipper Chain: A: PDB Molecule:gcn4p1; PDBTitle: gcn4-leucine zipper core mutant as n16a complexed with2 benzene 38 c1rb1A_ not modelled 8.4 35 PDB header:dna binding protein Chain: A: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 39 c1rb1B_ not modelled 8.4 35 PDB header:dna binding protein Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-leucine zipper core mutant as n16a trigonal automatic2 solution 40 c1ij3B_ not modelled 8.4 35 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position 41 c1ij3C_ not modelled 8.4 35 PDB header:transcription Chain: C: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvsl coiled-coil trimer with serine at the a(16)2 position 42 c3cvfA_ not modelled 8.2 32 PDB header:signaling protein Chain: A: PDB Molecule:homer protein homolog 3; PDBTitle: crystal structure of the carboxy terminus of homer3 43 c3qfiA_ not modelled 8.0 13 PDB header:transcription regulator Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: x-ray crystal structure of transcriptional regulator (ef0465) from2 enterococcus faecalis, northeast structural genomics consortium3 target efr190 44 d1fc2c_ not modelled 7.6 39 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 45 c2pxgA_ not modelled 7.5 13 PDB header:membrane protein Chain: A: PDB Molecule:outer membrane protein; PDBTitle: nmr solution structure of omla 46 c1ij2B_ not modelled 7.4 35 PDB header:transcription Chain: B: PDB Molecule:general control protein gcn4; PDBTitle: gcn4-pvtl coiled-coil trimer with threonine at the a(16)2 position 47 d1vr4a1 not modelled 7.3 20 Fold:Dodecin subunit-like Superfamily:YbjQ-like Family:YbjQ-like 48 c1uixA_ not modelled 7.3 37 PDB header:transferase Chain: A: PDB Molecule:rho-associated kinase; PDBTitle: coiled-coil structure of the rhoa-binding domain in rho-2 kinase 49 c1xtzA_ not modelled 7.2 9 PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase; PDBTitle: crystal structure of the s. cerevisiae d-ribose-5-phosphate isomerase:2 comparison with the archeal and bacterial enzymes 50 d1lp1a_ not modelled 7.1 22 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 51 c2a45J_ not modelled 7.1 20 PDB header:hydrolase/hydrolase inhibitor Chain: J: PDB Molecule:fibrinogen alpha chain; PDBTitle: crystal structure of the complex between thrombin and the central "e"2 region of fibrin 52 c1b6aA_ not modelled 6.9 25 PDB header:angiogenesis inhibitor Chain: A: PDB Molecule:methionine aminopeptidase; PDBTitle: human methionine aminopeptidase 2 complexed with tnp-470 53 c1e9zA_ not modelled 6.8 11 PDB header:hydrolase Chain: A: PDB Molecule:urease subunit alpha; PDBTitle: crystal structure of helicobacter pylori urease 54 d1e9ya2 not modelled 6.8 11 Fold:Urease, gamma-subunit Superfamily:Urease, gamma-subunit Family:Urease, gamma-subunit 55 c3okzB_ not modelled 6.7 21 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:putative uncharacterized protein gbs0355; PDBTitle: crystal structure of protein gbs0355 from streptococcus agalactiae,2 northeast structural genomics consortium target sar127 56 d2etda1 not modelled 6.6 27 Fold:Bromodomain-like Superfamily:LemA-like Family:LemA-like 57 d1deeg_ not modelled 6.3 33 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 58 c2juiA_ not modelled 6.0 46 PDB header:toxin Chain: A: PDB Molecule:plne; PDBTitle: three-dimensional structure of the two peptides that2 constitute the two-peptide bacteriocin plantaracin ef 59 d1jfib_ not modelled 5.9 24 Fold:Histone-fold Superfamily:Histone-fold Family:TBP-associated factors, TAFs 60 c1jfiB_ not modelled 5.9 24 PDB header:transcription/dna Chain: B: PDB Molecule:transcription regulator nc2 beta chain; PDBTitle: crystal structure of the nc2-tbp-dna ternary complex 61 d2jwda1 not modelled 5.9 39 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 62 d1lp1b_ not modelled 5.5 33 Fold:immunoglobulin/albumin-binding domain-like Superfamily:Bacterial immunoglobulin/albumin-binding domains Family:Immunoglobulin-binding protein A modules 63 c1m25A_ not modelled 5.5 100 PDB header:unknown function Chain: A: PDB Molecule:major prion protein; PDBTitle: structure of synthetic 26-mer peptide containing 145-1692 sheep prion protein segment and c-terminal cysteine in tfe3 solution 64 c1r8jB_ not modelled 5.5 20 PDB header:circadian clock protein Chain: B: PDB Molecule:kaia; PDBTitle: crystal structure of circadian clock protein kaia from2 synechococcus elongatus 65 c3cveC_ not modelled 5.4 18 PDB header:signaling protein Chain: C: PDB Molecule:homer protein homolog 1; PDBTitle: crystal structure of the carboxy terminus of homer1 66 c3qgaD_ not modelled 5.4 16 PDB header:hydrolase Chain: D: PDB Molecule:fusion of urease beta and gamma subunits; PDBTitle: 3.0 a model of iron containing urease urea2b2 from helicobacter2 mustelae 67 d2a3qa1 not modelled 5.2 20 Fold:all-alpha NTP pyrophosphatases Superfamily:all-alpha NTP pyrophosphatases Family:MazG-like 68 c2q4pA_ not modelled 5.2 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein rs21-c6; PDBTitle: ensemble refinement of the crystal structure of protein from mus2 musculus mm.29898 69 d1v2za_ not modelled 5.2 20 Fold:KaiA/RbsU domain Superfamily:KaiA/RbsU domain Family:Circadian clock protein KaiA, C-terminal domain 70 c3jzaB_ not modelled 5.2 37 PDB header:transport protein Chain: B: PDB Molecule:uncharacterized protein drra; PDBTitle: crystal structure of human rab1b in complex with the gef domain of2 drra/sidm from legionella pneumophila 71 c1vtpA_ not modelled 5.0 40 PDB header:targeting peptide Chain: A: PDB Molecule:vacuolar targeting peptide; PDBTitle: vacuolar targeting peptide from na-propi

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