Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	K	F	D	A	N	R	R	K	L	L	A	L	G	G	V	A	L	G	A	A	I	L	P	T	P	A	F	A	T	L	S	T	P	R	P	R	I	L	T	L	N	N	L	H	T	G	E	S	I	K	A	E	F	F	D	G	R	G
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?																?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		Y	I	Q	E	E	L	A	K	L	N	H	F	F	R	D	Y	R	A	N	K	I	K	S	I	D	P	G	L	F	D	Q	L	Y	R	L	Q	G	L	L	G	T	R	K	P	V	Q	L	I	S	G	Y	R	S	I	D	T	N	N	E	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	A	R	S	R	G	V	A	K	K	S	Y	H	T	K	G	Q	A	M	D	F	H	I	E	G	I	A	L	S	N	I	R	K	A	A	L	S	M	R	A	G	G	V	G	Y	Y	P	R	S	N	F	V	H	I	D	T	G	P	A	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?																																																		?	?
Disorder confidence
		.	.
Sequence		H	W
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 1lbu chain A domain 2 Region: 66 - 182 Aligned: 111 Modelled: 117 Confidence: 100.0% Identity: 26% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: Muramoyl-pentapeptide carboxypeptidase Phyre2 PDB 1lbu chain A Region: 86 - 182 Aligned: 91 Modelled: 97 Confidence: 99.9% Identity: 25% PDB header:hydrolase Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase; PDBTitle: hydrolase metallo (zn) dd-peptidase Phyre2 PDB 2vo9 chain C Region: 84 - 160 Aligned: 77 Modelled: 77 Confidence: 98.2% Identity: 21% PDB header:hydrolase Chain: C: PDB Molecule:l-alanyl-d-glutamate peptidase; PDBTitle: crystal structure of the enzymatically active domain of the2 listeria monocytogenes bacteriophage 500 endolysin ply500 Phyre2 PDB 2vo9 chain A domain 1 Region: 84 - 143 Aligned: 60 Modelled: 60 Confidence: 98.1% Identity: 25% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: VanY-like Phyre2 PDB 2ibg chain E domain 1 Region: 84 - 176 Aligned: 80 Modelled: 93 Confidence: 97.2% Identity: 16% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: Hedgehog (development protein), N-terminal signaling domain Phyre2 PDB 3m1n chain B Region: 72 - 176 Aligned: 91 Modelled: 105 Confidence: 97.2% Identity: 22% PDB header:signaling protein Chain: B: PDB Molecule:sonic hedgehog protein; PDBTitle: crystal structure of human sonic hedgehog n-terminal domain Phyre2 PDB 3d1m chain A domain 1 Region: 77 - 176 Aligned: 87 Modelled: 100 Confidence: 97.1% Identity: 20% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: Hedgehog (development protein), N-terminal signaling domain Phyre2 PDB 1r44 chain A Region: 84 - 147 Aligned: 64 Modelled: 64 Confidence: 96.0% Identity: 27% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: VanX-like Phyre2 PDB 2e76 chain D Region: 2 - 30 Aligned: 29 Modelled: 29 Confidence: 59.7% Identity: 17% PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus Phyre2 PDB 2f2f chain C Region: 37 - 80 Aligned: 39 Modelled: 44 Confidence: 53.4% Identity: 23% PDB header:toxin Chain: C: PDB Molecule:cytolethal distending toxin c; PDBTitle: crystal structure of cytolethal distending toxin (cdt) from2 actinobacillus actinomycetemcomitans Phyre2 PDB 2f2f chain C domain 1 Region: 37 - 80 Aligned: 39 Modelled: 44 Confidence: 53.4% Identity: 23% Fold: beta-Trefoil Superfamily: Ricin B-like lectins Family: Ricin B-like Phyre2 PDB 1gtm chain A domain 2 Region: 77 - 158 Aligned: 68 Modelled: 82 Confidence: 43.3% Identity: 29% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Aminoacid dehydrogenases Phyre2 PDB 1p84 chain E Region: 2 - 24 Aligned: 23 Modelled: 23 Confidence: 39.2% Identity: 13% PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: hdbt inhibited yeast cytochrome bc1 complex Phyre2 PDB 1sr4 chain C Region: 37 - 80 Aligned: 39 Modelled: 44 Confidence: 36.1% Identity: 21% Fold: beta-Trefoil Superfamily: Ricin B-like lectins Family: Ricin B-like Phyre2 PDB 3g7k chain D Region: 20 - 65 Aligned: 46 Modelled: 46 Confidence: 30.3% Identity: 15% PDB header:isomerase Chain: D: PDB Molecule:3-methylitaconate isomerase; PDBTitle: crystal structure of methylitaconate-delta-isomerase Phyre2 PDB 1bvu chain A domain 2 Region: 77 - 158 Aligned: 68 Modelled: 82 Confidence: 29.7% Identity: 28% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Aminoacid dehydrogenases Phyre2 PDB 2h31 chain A Region: 53 - 116 Aligned: 64 Modelled: 64 Confidence: 29.1% Identity: 9% PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis Phyre2 PDB 3k8z chain D Region: 84 - 158 Aligned: 60 Modelled: 75 Confidence: 28.0% Identity: 20% PDB header:oxidoreductase Chain: D: PDB Molecule:nad-specific glutamate dehydrogenase; PDBTitle: crystal structure of gudb1 a decryptified secondary glutamate2 dehydrogenase from b. subtilis Phyre2 PDB 1am7 chain A Region: 1 - 14 Aligned: 14 Modelled: 14 Confidence: 26.8% Identity: 21% Fold: Lysozyme-like Superfamily: Lysozyme-like Family: Lambda lysozyme Phyre2 PDB 1euz chain A domain 2 Region: 77 - 158 Aligned: 68 Modelled: 82 Confidence: 23.8% Identity: 25% Fold: Aminoacid dehydrogenase-like, N-terminal domain Superfamily: Aminoacid dehydrogenase-like, N-terminal domain Family: Aminoacid dehydrogenases Phyre2 1 d1lbua2 2 c1lbuA_ 3 c2vo9C_ 4 d2vo9a1 5 d2ibge1 6 c3m1nB_ 7 d3d1ma1 8 d1r44a_ 9 c2e76D_ 10 c2f2fC_ 11 d2f2fc1 12 d1gtma2 13 c1p84E_ 14 d1sr4c_ 15 c3g7kD_ 16 d1bvua2 17 c2h31A_ 18 c3k8zD_ 19 d1am7a_ 20 d1euza2 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

Detailed template information

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

1 d1lbua2 100.0 26 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:Muramoyl-pentapeptide carboxypeptidase 2 c1lbuA_ 99.9 25 PDB header:hydrolase Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase; PDBTitle: hydrolase metallo (zn) dd-peptidase 3 c2vo9C_ 98.2 21 PDB header:hydrolase Chain: C: PDB Molecule:l-alanyl-d-glutamate peptidase; PDBTitle: crystal structure of the enzymatically active domain of the2 listeria monocytogenes bacteriophage 500 endolysin ply500 4 d2vo9a1 98.1 25 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:VanY-like 5 d2ibge1 97.2 16 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:Hedgehog (development protein), N-terminal signaling domain 6 c3m1nB_ 97.2 22 PDB header:signaling protein Chain: B: PDB Molecule:sonic hedgehog protein; PDBTitle: crystal structure of human sonic hedgehog n-terminal domain 7 d3d1ma1 97.1 20 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:Hedgehog (development protein), N-terminal signaling domain 8 d1r44a_ 96.0 27 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:VanX-like 9 c2e76D_ 59.7 17 PDB header:photosynthesis Chain: D: PDB Molecule:cytochrome b6-f complex iron-sulfur subunit; PDBTitle: crystal structure of the cytochrome b6f complex with tridecyl-2 stigmatellin (tds) from m.laminosus 10 c2f2fC_ 53.4 23 PDB header:toxin Chain: C: PDB Molecule:cytolethal distending toxin c; PDBTitle: crystal structure of cytolethal distending toxin (cdt) from2 actinobacillus actinomycetemcomitans 11 d2f2fc1 53.4 23 Fold:beta-Trefoil Superfamily:Ricin B-like lectins Family:Ricin B-like 12 d1gtma2 43.3 29 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 13 c1p84E_ 39.2 13 PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: hdbt inhibited yeast cytochrome bc1 complex 14 d1sr4c_ 36.1 21 Fold:beta-Trefoil Superfamily:Ricin B-like lectins Family:Ricin B-like 15 c3g7kD_ 30.3 15 PDB header:isomerase Chain: D: PDB Molecule:3-methylitaconate isomerase; PDBTitle: crystal structure of methylitaconate-delta-isomerase 16 d1bvua2 29.7 28 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 17 c2h31A_ 29.1 9 PDB header:ligase, lyase Chain: A: PDB Molecule:multifunctional protein ade2; PDBTitle: crystal structure of human paics, a bifunctional carboxylase and2 synthetase in purine biosynthesis 18 c3k8zD_ 28.0 20 PDB header:oxidoreductase Chain: D: PDB Molecule:nad-specific glutamate dehydrogenase; PDBTitle: crystal structure of gudb1 a decryptified secondary glutamate2 dehydrogenase from b. subtilis 19 d1am7a_ 26.8 21 Fold:Lysozyme-like Superfamily:Lysozyme-like Family:Lambda lysozyme 20 d1euza2 23.8 25 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 21 d1m0wa1 not modelled 22.5 19 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:Eukaryotic glutathione synthetase, substrate-binding domain 22 c2fynO_ not modelled 21.5 21 PDB header:oxidoreductase Chain: O: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur PDBTitle: crystal structure analysis of the double mutant rhodobacter2 sphaeroides bc1 complex 23 d2hgsa1 not modelled 20.6 26 Fold:PreATP-grasp domain Superfamily:PreATP-grasp domain Family:Eukaryotic glutathione synthetase, substrate-binding domain 24 c2fyuE_ not modelled 19.5 7 PDB header:oxidoreductase Chain: E: PDB Molecule:ubiquinol-cytochrome c reductase iron-sulfur subunit, PDBTitle: crystal structure of bovine heart mitochondrial bc1 with jg1442 inhibitor 25 c3kalB_ not modelled 18.4 22 PDB header:ligase Chain: B: PDB Molecule:homoglutathione synthetase; PDBTitle: structure of homoglutathione synthetase from glycine max in2 closed conformation with homoglutathione, adp, a sulfate3 ion, and three magnesium ions bound 26 c3a7kD_ not modelled 14.3 11 PDB header:membrane protein Chain: D: PDB Molecule:halorhodopsin; PDBTitle: crystal structure of halorhodopsin from natronomonas2 pharaonis 27 c3aoeC_ not modelled 14.3 27 PDB header:oxidoreductase Chain: C: PDB Molecule:glutamate dehydrogenase; PDBTitle: crystal structure of hetero-hexameric glutamate dehydrogenase from2 thermus thermophilus (leu bound form) 28 c2pw0A_ not modelled 12.7 9 PDB header:unknown function Chain: A: PDB Molecule:prpf methylaconitate isomerase; PDBTitle: crystal structure of trans-aconitate bound to methylaconitate2 isomerase prpf from shewanella oneidensis 29 c2pq4B_ not modelled 12.4 29 PDB header:chaperone/oxidoreductase Chain: B: PDB Molecule:periplasmic nitrate reductase precursor; PDBTitle: nmr solution structure of napd in complex with napa1-352 signal peptide 30 c2c7hA_ not modelled 12.4 33 PDB header:ubiquitin-like protein Chain: A: PDB Molecule:retinoblastoma-binding protein 6, isoform 3; PDBTitle: solution nmr structure of the dwnn domain from human rbbp6 31 c3n6jA_ not modelled 11.2 10 PDB header:isomerase Chain: A: PDB Molecule:mandelate racemase/muconate lactonizing protein; PDBTitle: crystal structure of mandelate racemase/muconate lactonizing protein2 from actinobacillus succinogenes 130z 32 c3mfnD_ not modelled 11.2 20 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:uncharacterized protein; PDBTitle: dfer_2879 protein of unknown function from dyadobacter fermentans 33 d2h9fa1 not modelled 10.0 18 Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:PA0793-like 34 d1b26a2 not modelled 10.0 34 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 35 c2hgsA_ not modelled 9.9 26 PDB header:amine/carboxylate ligase Chain: A: PDB Molecule:protein (glutathione synthetase); PDBTitle: human glutathione synthetase 36 d2hrkb1 not modelled 9.9 47 Fold:GST C-terminal domain-like Superfamily:GST C-terminal domain-like Family:Arc1p N-terminal domain-like 37 c3bbnP_ not modelled 9.7 20 PDB header:ribosome Chain: P: PDB Molecule:ribosomal protein s16; PDBTitle: homology model for the spinach chloroplast 30s subunit2 fitted to 9.4a cryo-em map of the 70s chlororibosome. 38 d1u02a_ not modelled 9.5 21 Fold:HAD-like Superfamily:HAD-like Family:Trehalose-phosphatase 39 d2r25b1 not modelled 9.4 14 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 40 c1bvuF_ not modelled 9.3 29 PDB header:oxidoreductase Chain: F: PDB Molecule:protein (glutamate dehydrogenase); PDBTitle: glutamate dehydrogenase from thermococcus litoralis 41 c1nr1A_ not modelled 9.2 17 PDB header:oxidoreductase Chain: A: PDB Molecule:glutamate dehydrogenase 1; PDBTitle: crystal structure of the r463a mutant of human glutamate2 dehydrogenase 42 d1okga3 not modelled 8.6 44 Fold:FKBP-like Superfamily:FKBP-like Family:3-mercaptopyruvate sulfurtransferase, C-terminal domain 43 d1qw1a1 not modelled 8.6 18 Fold:SH3-like barrel Superfamily:C-terminal domain of transcriptional repressors Family:FeoA-like 44 d1v9la2 not modelled 8.4 25 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 45 c1xf7A_ not modelled 8.4 57 PDB header:transcription Chain: A: PDB Molecule:wilms' tumor protein; PDBTitle: high resolution nmr structure of the wilms' tumor2 suppressor protein (wt1) finger 3 46 d1xf7a_ not modelled 8.4 57 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 47 c1m0tB_ not modelled 7.7 19 PDB header:ligase Chain: B: PDB Molecule:glutathione synthetase; PDBTitle: yeast glutathione synthase 48 c3s2xB_ not modelled 7.7 32 PDB header:transferase Chain: B: PDB Molecule:acetyl-coa synthase subunit alpha; PDBTitle: structure of acetyl-coenzyme a synthase alpha subunit c-terminal2 domain 49 c3hdvB_ not modelled 7.0 12 PDB header:transcription regulator Chain: B: PDB Molecule:response regulator; PDBTitle: crystal structure of response regulator receiver protein from2 pseudomonas putida 50 d1bgva2 not modelled 7.0 23 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Aminoacid dehydrogenases 51 c2wyoC_ not modelled 7.0 19 PDB header:ligase Chain: C: PDB Molecule:glutathione synthetase; PDBTitle: trypanosoma brucei glutathione synthetase 52 d1sp2a_ not modelled 6.6 57 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 53 d1dz3a_ not modelled 6.6 16 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 54 d1qcza_ not modelled 6.5 19 Fold:Flavodoxin-like Superfamily:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) Family:N5-CAIR mutase (phosphoribosylaminoimidazole carboxylase, PurE) 55 c2jx5A_ not modelled 6.5 35 PDB header:ribosomal protein Chain: A: PDB Molecule:glub(s27a); PDBTitle: solution structure of the ubiquitin domain n-terminal to2 the s27a ribosomal subunit of giardia lamblia 56 c1arfA_ not modelled 6.1 43 PDB header:transcription regulation Chain: A: PDB Molecule:yeast transcription factor adr1; PDBTitle: structures of dna-binding mutant zinc finger domains:2 implications for dna binding 57 d2adra1 not modelled 5.8 43 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 58 c3dclC_ not modelled 5.8 40 PDB header:structural genomics, unknown function Chain: C: PDB Molecule:tm1086; PDBTitle: crystal structure of tm1086 59 d1x6ha2 not modelled 5.7 57 Fold:beta-beta-alpha zinc fingers Superfamily:beta-beta-alpha zinc fingers Family:Classic zinc finger, C2H2 60 c1areA_ not modelled 5.7 43 PDB header:transcription regulation Chain: A: PDB Molecule:yeast transcription factor adr1; PDBTitle: structures of dna-binding mutant zinc finger domains:2 implications for dna binding 61 d1ynja1 not modelled 5.5 7 Fold:DCoH-like Superfamily:RBP11-like subunits of RNA polymerase Family:RNA polymerase alpha subunit dimerisation domain 62 c3rggD_ not modelled 5.3 13 PDB header:lyase Chain: D: PDB Molecule:phosphoribosylaminoimidazole carboxylase, pure protein; PDBTitle: crystal structure of treponema denticola pure bound to air 63 c3thaB_ not modelled 5.3 13 PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: tryptophan synthase subunit alpha from campylobacter jejuni. 64 c3lk2B_ not modelled 5.3 44 PDB header:protein binding Chain: B: PDB Molecule:f-actin-capping protein subunit beta isoforms 1 and 2; PDBTitle: crystal structure of capz bound to the uncapping motif from carmil 65 c2g9mB_ not modelled 5.1 11 PDB header:electron transport Chain: B: PDB Molecule:phycoerythrin; PDBTitle: crystal structure of the pigment protein phycoerythrin from2 cyanobacterium at 2.6a resolution

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