Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	Q	I	P	R	M	S	L	R	Q	L	A	W	S	G	A	V	L	L	L	V	G	T	L	L	L	A	W	S	A	V	R	Q	Q	E	S	T	L	A	I	R	A	V	H	Q	G	T	T	M	P	D	G	F	S	I	W	H	H	L	D
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?		?	?																			?	?	?			?	?	?					?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	H	G	I	P	F	K	S	I	T	P	K	N	D	T	L	L	I	T	F	D	S	S	D	Q	S	A	A	A	K	A	V	L	D	R	T	L	P	H	G	Y	I	I	A	Q	Q	D	N	N	S	Q	A	M	Q	W	L	T	R	L	R
Secondary structure
SS confidence
Disorder			?									?																																	?		?	?	?	?	?	?	?							?	?
Disorder confidence
		.	.	.	.	.	.	.
Sequence		D	N	S	H	R	F	G
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 1yj7 chain A Region: 43 - 100 Aligned: 58 Modelled: 58 Confidence: 58.8% Identity: 12% PDB header:protein transport Chain: A: PDB Molecule:escj; PDBTitle: crystal structure of enteropathogenic e.coli (epec) type iii secretion2 system protein escj Phyre2 PDB 3aqo chain D Region: 55 - 96 Aligned: 42 Modelled: 42 Confidence: 53.8% Identity: 10% PDB header:membrane protein Chain: D: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: structure and function of a membrane component secdf that enhances2 protein export Phyre2 PDB 1t1e chain A domain 2 Region: 46 - 79 Aligned: 34 Modelled: 34 Confidence: 41.1% Identity: 21% Fold: Ferredoxin-like Superfamily: Protease propeptides/inhibitors Family: Subtilase propeptides/inhibitors Phyre2 PDB 2y9j chain T Region: 43 - 100 Aligned: 58 Modelled: 58 Confidence: 40.6% Identity: 21% PDB header:protein transport Chain: T: PDB Molecule:protein prgh; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution Phyre2 PDB 3mah chain A Region: 33 - 95 Aligned: 63 Modelled: 63 Confidence: 36.9% Identity: 10% PDB header:transferase Chain: A: PDB Molecule:aspartokinase; PDBTitle: a putative c-terminal regulatory domain of aspartate kinase from2 porphyromonas gingivalis w83. Phyre2 PDB 2f06 chain A domain 1 Region: 49 - 103 Aligned: 49 Modelled: 55 Confidence: 31.6% Identity: 20% Fold: Ferredoxin-like Superfamily: ACT-like Family: BT0572-like Phyre2 PDB 2re1 chain A Region: 33 - 95 Aligned: 59 Modelled: 63 Confidence: 31.0% Identity: 14% PDB header:transferase Chain: A: PDB Molecule:aspartokinase, alpha and beta subunits; PDBTitle: crystal structure of aspartokinase alpha and beta subunits Phyre2 PDB 2os2 chain A Region: 57 - 117 Aligned: 51 Modelled: 61 Confidence: 30.0% Identity: 27% PDB header:oxidoreductase Chain: A: PDB Molecule:jmjc domain-containing histone demethylation protein 3a; PDBTitle: crystal structure of jmjd2a complexed with histone h3 peptide2 trimethylated at lys36 Phyre2 PDB 2w2i chain C Region: 57 - 117 Aligned: 51 Modelled: 61 Confidence: 27.9% Identity: 25% PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate oxygenase; PDBTitle: crystal structure of the human 2-oxoglutarate oxygenase2 loc390245 Phyre2 PDB 2j0w chain A domain 2 Region: 40 - 95 Aligned: 56 Modelled: 56 Confidence: 27.0% Identity: 18% Fold: Ferredoxin-like Superfamily: ACT-like Family: Aspartokinase allosteric domain-like Phyre2 PDB 1zsw chain A Region: 48 - 84 Aligned: 37 Modelled: 37 Confidence: 26.6% Identity: 5% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:glyoxalase family protein; PDBTitle: crystal structure of bacillus cereus metallo protein from glyoxalase2 family Phyre2 PDB 2dnr chain A Region: 32 - 119 Aligned: 82 Modelled: 88 Confidence: 26.0% Identity: 13% PDB header:rna binding protein Chain: A: PDB Molecule:synaptojanin-1; PDBTitle: solution structure of rna binding domain in synaptojanin 1 Phyre2 PDB 3ftb chain A Region: 51 - 99 Aligned: 49 Modelled: 49 Confidence: 25.1% Identity: 8% PDB header:transferase Chain: A: PDB Molecule:histidinol-phosphate aminotransferase; PDBTitle: the crystal structure of the histidinol-phosphate2 aminotransferase from clostridium acetobutylicum Phyre2 PDB 2rrn chain A Region: 50 - 98 Aligned: 49 Modelled: 49 Confidence: 24.0% Identity: 16% PDB header:protein transport Chain: A: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: solution structure of secdf periplasmic domain p4 Phyre2 PDB 2cdq chain A domain 2 Region: 40 - 84 Aligned: 45 Modelled: 45 Confidence: 23.1% Identity: 16% Fold: Ferredoxin-like Superfamily: ACT-like Family: Aspartokinase allosteric domain-like Phyre2 PDB 2q8e chain B Region: 57 - 117 Aligned: 51 Modelled: 61 Confidence: 22.6% Identity: 27% PDB header:oxidoreductase Chain: B: PDB Molecule:jmjc domain-containing histone demethylation PDBTitle: specificity and mechanism of jmjd2a, a trimethyllysine-2 specific histone demethylase Phyre2 PDB 2k42 chain B Region: 46 - 66 Aligned: 21 Modelled: 21 Confidence: 22.3% Identity: 38% PDB header:signaling protein Chain: B: PDB Molecule:espfu; PDBTitle: solution structure of the gtpase binding domain of wasp in2 complex with espfu, an ehec effector Phyre2 PDB 2zho chain B Region: 33 - 97 Aligned: 60 Modelled: 65 Confidence: 21.6% Identity: 17% PDB header:transferase Chain: B: PDB Molecule:aspartokinase; PDBTitle: crystal structure of the regulatory subunit of aspartate2 kinase from thermus thermophilus (ligand free form) Phyre2 PDB 2wbr chain A Region: 71 - 104 Aligned: 34 Modelled: 34 Confidence: 20.1% Identity: 18% PDB header:dna-binding protein Chain: A: PDB Molecule:gw182; PDBTitle: the rrm domain in gw182 proteins contributes to mirna-2 mediated gene silencing Phyre2 PDB 1vbk chain A domain 2 Region: 55 - 98 Aligned: 41 Modelled: 44 Confidence: 18.6% Identity: 24% Fold: THUMP domain Superfamily: THUMP domain-like Family: THUMP domain Phyre2 1 c1yj7A_ 2 c3aqoD_ 3 d1t1ea2 4 c2y9jt_ 5 c3mahA_ 6 d2f06a1 7 c2re1A_ 8 c2os2A_ 9 c2w2iC_ 10 d2j0wa2 11 c1zswA_ 12 c2dnrA_ 13 c3ftbA_ 14 c2rrnA_ 15 d2cdqa2 16 c2q8eB_ 17 c2k42B_ 18 c2zhoB_ 19 c2wbrA_ 20 d1vbka2 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

Detailed template information

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

1 c1yj7A_ 58.8 12 PDB header:protein transport Chain: A: PDB Molecule:escj; PDBTitle: crystal structure of enteropathogenic e.coli (epec) type iii secretion2 system protein escj 2 c3aqoD_ 53.8 10 PDB header:membrane protein Chain: D: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: structure and function of a membrane component secdf that enhances2 protein export 3 d1t1ea2 41.1 21 Fold:Ferredoxin-like Superfamily:Protease propeptides/inhibitors Family:Subtilase propeptides/inhibitors 4 c2y9jt_ 40.6 21 PDB header:protein transport Chain: T: PDB Molecule:protein prgh; PDBTitle: three-dimensional model of salmonella's needle complex at2 subnanometer resolution 5 c3mahA_ 36.9 10 PDB header:transferase Chain: A: PDB Molecule:aspartokinase; PDBTitle: a putative c-terminal regulatory domain of aspartate kinase from2 porphyromonas gingivalis w83. 6 d2f06a1 31.6 20 Fold:Ferredoxin-like Superfamily:ACT-like Family:BT0572-like 7 c2re1A_ 31.0 14 PDB header:transferase Chain: A: PDB Molecule:aspartokinase, alpha and beta subunits; PDBTitle: crystal structure of aspartokinase alpha and beta subunits 8 c2os2A_ 30.0 27 PDB header:oxidoreductase Chain: A: PDB Molecule:jmjc domain-containing histone demethylation protein 3a; PDBTitle: crystal structure of jmjd2a complexed with histone h3 peptide2 trimethylated at lys36 9 c2w2iC_ 27.9 25 PDB header:oxidoreductase Chain: C: PDB Molecule:2-oxoglutarate oxygenase; PDBTitle: crystal structure of the human 2-oxoglutarate oxygenase2 loc390245 10 d2j0wa2 27.0 18 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 11 c1zswA_ 26.6 5 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:glyoxalase family protein; PDBTitle: crystal structure of bacillus cereus metallo protein from glyoxalase2 family 12 c2dnrA_ 26.0 13 PDB header:rna binding protein Chain: A: PDB Molecule:synaptojanin-1; PDBTitle: solution structure of rna binding domain in synaptojanin 1 13 c3ftbA_ 25.1 8 PDB header:transferase Chain: A: PDB Molecule:histidinol-phosphate aminotransferase; PDBTitle: the crystal structure of the histidinol-phosphate2 aminotransferase from clostridium acetobutylicum 14 c2rrnA_ 24.0 16 PDB header:protein transport Chain: A: PDB Molecule:probable secdf protein-export membrane protein; PDBTitle: solution structure of secdf periplasmic domain p4 15 d2cdqa2 23.1 16 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 16 c2q8eB_ 22.6 27 PDB header:oxidoreductase Chain: B: PDB Molecule:jmjc domain-containing histone demethylation PDBTitle: specificity and mechanism of jmjd2a, a trimethyllysine-2 specific histone demethylase 17 c2k42B_ 22.3 38 PDB header:signaling protein Chain: B: PDB Molecule:espfu; PDBTitle: solution structure of the gtpase binding domain of wasp in2 complex with espfu, an ehec effector 18 c2zhoB_ 21.6 17 PDB header:transferase Chain: B: PDB Molecule:aspartokinase; PDBTitle: crystal structure of the regulatory subunit of aspartate2 kinase from thermus thermophilus (ligand free form) 19 c2wbrA_ 20.1 18 PDB header:dna-binding protein Chain: A: PDB Molecule:gw182; PDBTitle: the rrm domain in gw182 proteins contributes to mirna-2 mediated gene silencing 20 d1vbka2 18.6 24 Fold:THUMP domain Superfamily:THUMP domain-like Family:THUMP domain 21 c3ktbD_ not modelled 18.3 21 PDB header:transcription regulator Chain: D: PDB Molecule:arsenical resistance operon trans-acting repressor; PDBTitle: crystal structure of arsenical resistance operon trans-acting2 repressor from bacteroides vulgatus atcc 8482 22 c3eucB_ not modelled 17.8 18 PDB header:transferase Chain: B: PDB Molecule:histidinol-phosphate aminotransferase 2; PDBTitle: crystal structure of histidinol-phosphate aminotransferase2 (yp_297314.1) from ralstonia eutropha jmp134 at 2.05 a resolution 23 c2f06B_ not modelled 16.6 14 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of protein bt0572 from bacteroides thetaiotaomicron 24 d1uv7a_ not modelled 16.1 10 Fold:RRF/tRNA synthetase additional domain-like Superfamily:General secretion pathway protein M, EpsM Family:General secretion pathway protein M, EpsM 25 c1uv7A_ not modelled 16.1 10 PDB header:transport Chain: A: PDB Molecule:general secretion pathway protein m; PDBTitle: periplasmic domain of epsm from vibrio cholerae 26 c3ffhA_ not modelled 15.9 21 PDB header:transferase Chain: A: PDB Molecule:histidinol-phosphate aminotransferase; PDBTitle: the crystal structure of histidinol-phosphate aminotransferase from2 listeria innocua clip11262. 27 d2i8ga1 not modelled 15.7 15 Fold:Mog1p/PsbP-like Superfamily:Mog1p/PsbP-like Family:DIP2269-like 28 c3kgkA_ not modelled 15.1 10 PDB header:chaperone Chain: A: PDB Molecule:arsenical resistance operon trans-acting repressor arsd; PDBTitle: crystal structure of arsd 29 d1gtda_ not modelled 14.6 23 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 30 c2kyzA_ not modelled 13.8 14 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 31 c2yx5A_ not modelled 13.7 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0062 protein mj1593; PDBTitle: crystal structure of methanocaldococcus jannaschii purs, one of the2 subunits of formylglycinamide ribonucleotide amidotransferase in the3 purine biosynthetic pathway 32 d2f06a2 not modelled 12.1 10 Fold:Ferredoxin-like Superfamily:ACT-like Family:BT0572-like 33 d1vkpa_ not modelled 11.7 26 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 34 d1b5pa_ not modelled 11.0 17 Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:AAT-like 35 c1t1eA_ not modelled 10.9 22 PDB header:hydrolase Chain: A: PDB Molecule:kumamolisin; PDBTitle: high resolution crystal structure of the intact pro-2 kumamolisin, a sedolisin type proteinase (previously3 called kumamolysin or kscp) 36 c3edyA_ not modelled 10.0 15 PDB header:hydrolase Chain: A: PDB Molecule:tripeptidyl-peptidase 1; PDBTitle: crystal structure of the precursor form of human tripeptidyl-peptidase2 1 37 c3ffrA_ not modelled 9.9 12 PDB header:transferase Chain: A: PDB Molecule:phosphoserine aminotransferase serc; PDBTitle: crystal structure of a phosphoserine aminotransferase serc (chu_0995)2 from cytophaga hutchinsonii atcc 33406 at 1.75 a resolution 38 c1vbkA_ not modelled 9.4 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein ph1313; PDBTitle: crystal structure of ph1313 from pyrococcus horikoshii ot3 39 d1zswa2 not modelled 9.2 11 Fold:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Superfamily:Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase Family:BC1024-like 40 c3getA_ not modelled 9.1 17 PDB header:transferase Chain: A: PDB Molecule:histidinol-phosphate aminotransferase; PDBTitle: crystal structure of putative histidinol-phosphate aminotransferase2 (np_281508.1) from campylobacter jejuni at 2.01 a resolution 41 d1t4aa_ not modelled 8.6 15 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 42 d2zkmx4 not modelled 8.6 16 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC 43 c3p1tB_ not modelled 7.7 17 PDB header:transferase Chain: B: PDB Molecule:putative histidinol-phosphate aminotransferase; PDBTitle: crystal structure of a putative aminotransferase (bpsl1724) from2 burkholderia pseudomallei k96243 at 2.60 a resolution 44 c2qqzB_ not modelled 7.6 11 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:glyoxalase family protein, putative; PDBTitle: crystal structure of putative glyoxalase family protein from bacillus2 anthracis 45 c3cnrA_ not modelled 7.5 17 PDB header:unknown function Chain: A: PDB Molecule:type iv fimbriae assembly protein; PDBTitle: crystal structure of pilz (xac1133) from xanthomonas2 axonopodis pv citri 46 c2dgbA_ not modelled 7.3 23 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein purs; PDBTitle: structure of thermus thermophilus purs in the p21 form 47 d2cmua1 not modelled 6.9 24 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 48 d1qasa3 not modelled 6.8 22 Fold:TIM beta/alpha-barrel Superfamily:PLC-like phosphodiesterases Family:Mammalian PLC 49 d2hmfa3 not modelled 6.8 17 Fold:Ferredoxin-like Superfamily:ACT-like Family:Aspartokinase allosteric domain-like 50 c3c0uA_ not modelled 6.8 60 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein yaeq; PDBTitle: crystal structure of e.coli yaeq protein 51 c3h96B_ not modelled 6.7 19 PDB header:flavoprotein Chain: B: PDB Molecule:f420-h2 dependent reductase a; PDBTitle: msmeg_3358 f420 reductase 52 c2zw2B_ not modelled 6.6 24 PDB header:ligase Chain: B: PDB Molecule:putative uncharacterized protein sts178; PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs) 53 c1oy8A_ not modelled 6.5 14 PDB header:membrane protein Chain: A: PDB Molecule:acriflavine resistance protein b; PDBTitle: structural basis of multiple drug binding capacity of the acrb2 multidrug efflux pump 54 d2ot9a1 not modelled 6.4 40 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:YaeQ-like 55 d1vhqa_ not modelled 6.4 10 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:DJ-1/PfpI 56 d2g3wa1 not modelled 6.3 40 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:YaeQ-like 57 d1vq3a_ not modelled 6.2 10 Fold:PurS-like Superfamily:PurS-like Family:PurS subunit of FGAM synthetase 58 c3oajA_ not modelled 6.2 15 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:putative ring-cleaving dioxygenase mhqo; PDBTitle: crystal structure of putative dioxygenase from bacillus subtilis2 subsp. subtilis str. 168 59 c3fwzA_ not modelled 5.9 23 PDB header:membrane protein Chain: A: PDB Molecule:inner membrane protein ybal; PDBTitle: crystal structure of trka-n domain of inner membrane protein ybal from2 escherichia coli 60 d2op5a1 not modelled 5.7 16 Fold:Ferredoxin-like Superfamily:Dimeric alpha+beta barrel Family:Marine metagenome family DABB1 61 c3ly1C_ not modelled 5.6 12 PDB header:transferase Chain: C: PDB Molecule:putative histidinol-phosphate aminotransferase; PDBTitle: crystal structure of putative histidinol-phosphate aminotransferase2 (yp_050345.1) from erwinia carotovora atroseptica scri1043 at 1.80 a3 resolution 62 d1iuga_ not modelled 5.6 4 Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:Cystathionine synthase-like 63 d1o4sa_ not modelled 5.6 15 Fold:PLP-dependent transferase-like Superfamily:PLP-dependent transferases Family:AAT-like

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