Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	M	T	Y	H	L	D	V	V	S	A	E	Q	Q	M	F	S	G	L	V	E	K	I	Q	V	T	G	S	E	G	E	L	G	I	Y	P	G	H	A	P	L	L	T	A	I	K	P	G	M	I	R	I	V	K	Q	H	G	H	E
Secondary structure
SS confidence
Disorder		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	F	I	Y	L	S	G	G	I	L	E	V	Q	P	G	N	V	T	V	L	A	D	T	A	I	R	G	Q	D	L	D	E	A	R	A	M	E	A	K	R	K	A	E	E	H	I	S	S	S	H	G	D	V	D	Y	A	Q	A	S	A
Secondary structure
SS confidence
Disorder																																																?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.
Sequence		E	L	A	K	A	I	A	Q	L	R	V	I	E	L	T	K	K	A	M
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 2rq7 chain A Region: 3 - 136 Aligned: 133 Modelled: 134 Confidence: 100.0% Identity: 29% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1 Phyre2 PDB 2e5y chain A Region: 1 - 135 Aligned: 133 Modelled: 135 Confidence: 100.0% Identity: 39% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: epsilon subunit and atp complex of f1f0-atp synthase from2 the thermophilic bacillus ps3 Phyre2 PDB 1fs0 chain E Region: 2 - 134 Aligned: 127 Modelled: 133 Confidence: 100.0% Identity: 99% PDB header:hydrolase Chain: E: PDB Molecule:atp synthase epsilon subunit; PDBTitle: complex of gamma/epsilon atp synthase from e.coli Phyre2 PDB 2qe7 chain H Region: 1 - 135 Aligned: 133 Modelled: 135 Confidence: 100.0% Identity: 39% PDB header:hydrolase Chain: H: PDB Molecule:atp synthase subunit epsilon; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1 Phyre2 PDB 2hld chain H Region: 6 - 129 Aligned: 120 Modelled: 123 Confidence: 99.9% Identity: 18% PDB header:hydrolase Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial; PDBTitle: crystal structure of yeast mitochondrial f1-atpase Phyre2 PDB 1aqt chain A domain 2 Region: 4 - 87 Aligned: 84 Modelled: 84 Confidence: 99.9% Identity: 100% Fold: Epsilon subunit of F1F0-ATP synthase N-terminal domain Superfamily: Epsilon subunit of F1F0-ATP synthase N-terminal domain Family: Epsilon subunit of F1F0-ATP synthase N-terminal domain Phyre2 PDB 1h8e chain H Region: 4 - 90 Aligned: 87 Modelled: 87 Confidence: 99.9% Identity: 26% PDB header:hydrolase Chain: H: PDB Molecule:bovine mitochondrial f1-atpase; PDBTitle: (adp.alf4)2(adp.so4) bovine f1-atpase2 (all three catalytic sites occupied) Phyre2 PDB 2e5t chain A Region: 90 - 135 Aligned: 46 Modelled: 46 Confidence: 97.9% Identity: 35% PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: c-terminal domain of epsilon subunit of f1f0-atp synthase2 from the thermophilic bacillus ps3 in the presence of atp3 condition Phyre2 PDB 1aqt chain A domain 1 Region: 88 - 137 Aligned: 50 Modelled: 50 Confidence: 97.7% Identity: 100% Fold: Long alpha-hairpin Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain Phyre2 PDB 3hqx chain A Region: 7 - 76 Aligned: 70 Modelled: 70 Confidence: 67.6% Identity: 24% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0345 protein aciad0356; PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1 Phyre2 PDB 1y60 chain A Region: 37 - 51 Aligned: 15 Modelled: 15 Confidence: 25.1% Identity: 33% Fold: Ribosomal protein S5 domain 2-like Superfamily: Ribosomal protein S5 domain 2-like Family: Formaldehyde-activating enzyme, FAE Phyre2 PDB 2jdi chain H domain 1 Region: 90 - 131 Aligned: 42 Modelled: 42 Confidence: 24.5% Identity: 17% Fold: Long alpha-hairpin Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain Phyre2 PDB 2qz7 chain B Region: 44 - 69 Aligned: 25 Modelled: 26 Confidence: 14.9% Identity: 24% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein sco6318; PDBTitle: the crystal structure of a homologue of telluride resistance protein2 (terd), sco6318 from streptomyces coelicolor a3(2) Phyre2 PDB 2ck3 chain H domain 1 Region: 90 - 123 Aligned: 34 Modelled: 34 Confidence: 14.2% Identity: 18% Fold: Long alpha-hairpin Superfamily: Epsilon subunit of F1F0-ATP synthase C-terminal domain Family: Epsilon subunit of F1F0-ATP synthase C-terminal domain Phyre2 PDB 2qnu chain B Region: 31 - 45 Aligned: 14 Modelled: 15 Confidence: 11.1% Identity: 21% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein pa0076; PDBTitle: crystal structure of pa0076 from pseudomonas aeruginosa pao12 at 2.05 a resolution Phyre2 PDB 2jer chain A domain 1 Region: 63 - 106 Aligned: 44 Modelled: 44 Confidence: 10.5% Identity: 14% Fold: Pentein, beta/alpha-propeller Superfamily: Pentein Family: Porphyromonas-type peptidylarginine deiminase Phyre2 PDB 1vkp chain A Region: 63 - 106 Aligned: 44 Modelled: 43 Confidence: 10.2% Identity: 11% Fold: Pentein, beta/alpha-propeller Superfamily: Pentein Family: Porphyromonas-type peptidylarginine deiminase Phyre2 PDB 3eo6 chain B Region: 6 - 85 Aligned: 80 Modelled: 80 Confidence: 9.8% Identity: 9% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein of unknown function (duf1255); PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution Phyre2 PDB 2jer chain G Region: 63 - 106 Aligned: 44 Modelled: 44 Confidence: 9.6% Identity: 14% PDB header:hydrolase Chain: G: PDB Molecule:agmatine deiminase; PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction. Phyre2 PDB 2vhg chain B Region: 32 - 48 Aligned: 17 Modelled: 17 Confidence: 8.8% Identity: 29% PDB header:dna-binding protein Chain: B: PDB Molecule:transposase orfa; PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna Phyre2 1 c2rq7A_ 2 c2e5yA_ 3 c1fs0E_ 4 c2qe7H_ 5 c2hldH_ 6 d1aqta2 7 c1h8eH_ 8 c2e5tA_ 9 d1aqta1 10 c3hqxA_ 11 d1y60a_ 12 d2jdih1 13 c2qz7B_ 14 d2ck3h1 15 c2qnuB_ 16 d2jera1 17 d1vkpa_ 18 c3eo6B_ 19 c2jerG_ 20 c2vhgB_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41

Detailed template information

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

1 c2rq7A_ 100.0 29 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: solution structure of the epsilon subunit chimera combining2 the n-terminal beta-sandwich domain from t. elongatus bp-13 f1 and the c-terminal alpha-helical domain from spinach4 chloroplast f1 2 c2e5yA_ 100.0 39 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: epsilon subunit and atp complex of f1f0-atp synthase from2 the thermophilic bacillus ps3 3 c1fs0E_ 100.0 99 PDB header:hydrolase Chain: E: PDB Molecule:atp synthase epsilon subunit; PDBTitle: complex of gamma/epsilon atp synthase from e.coli 4 c2qe7H_ 100.0 39 PDB header:hydrolase Chain: H: PDB Molecule:atp synthase subunit epsilon; PDBTitle: crystal structure of the f1-atpase from the thermoalkaliphilic2 bacterium bacillus sp. ta2.a1 5 c2hldH_ 99.9 18 PDB header:hydrolase Chain: H: PDB Molecule:atp synthase delta chain, mitochondrial; PDBTitle: crystal structure of yeast mitochondrial f1-atpase 6 d1aqta2 99.9 100 Fold:Epsilon subunit of F1F0-ATP synthase N-terminal domain Superfamily:Epsilon subunit of F1F0-ATP synthase N-terminal domain Family:Epsilon subunit of F1F0-ATP synthase N-terminal domain 7 c1h8eH_ 99.9 26 PDB header:hydrolase Chain: H: PDB Molecule:bovine mitochondrial f1-atpase; PDBTitle: (adp.alf4)2(adp.so4) bovine f1-atpase2 (all three catalytic sites occupied) 8 c2e5tA_ 97.9 35 PDB header:hydrolase Chain: A: PDB Molecule:atp synthase epsilon chain; PDBTitle: c-terminal domain of epsilon subunit of f1f0-atp synthase2 from the thermophilic bacillus ps3 in the presence of atp3 condition 9 d1aqta1 97.7 100 Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain 10 c3hqxA_ 67.6 24 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0345 protein aciad0356; PDBTitle: crystal structure of protein of unknown function (duf1255,pf06865)2 from acinetobacter sp. adp1 11 d1y60a_ 25.1 33 Fold:Ribosomal protein S5 domain 2-like Superfamily:Ribosomal protein S5 domain 2-like Family:Formaldehyde-activating enzyme, FAE 12 d2jdih1 24.5 17 Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain 13 c2qz7B_ 14.9 24 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein sco6318; PDBTitle: the crystal structure of a homologue of telluride resistance protein2 (terd), sco6318 from streptomyces coelicolor a3(2) 14 d2ck3h1 14.2 18 Fold:Long alpha-hairpin Superfamily:Epsilon subunit of F1F0-ATP synthase C-terminal domain Family:Epsilon subunit of F1F0-ATP synthase C-terminal domain 15 c2qnuB_ 11.1 21 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein pa0076; PDBTitle: crystal structure of pa0076 from pseudomonas aeruginosa pao12 at 2.05 a resolution 16 d2jera1 10.5 14 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 17 d1vkpa_ 10.2 11 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 18 c3eo6B_ 9.8 9 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:protein of unknown function (duf1255); PDBTitle: crystal structure of protein of unknown function (duf1255)2 (afe_2634) from acidithiobacillus ferrooxidans ncib8455 at3 0.97 a resolution 19 c2jerG_ 9.6 14 PDB header:hydrolase Chain: G: PDB Molecule:agmatine deiminase; PDBTitle: agmatine deiminase of enterococcus faecalis catalyzing its2 reaction. 20 c2vhgB_ 8.8 29 PDB header:dna-binding protein Chain: B: PDB Molecule:transposase orfa; PDBTitle: crystal structure of the ishp608 transposase in complex2 with right end 31-mer dna 21 c3frnA_ not modelled 8.6 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:flagellar protein flga; PDBTitle: crystal structure of flagellar protein flga from thermotoga maritima2 msb8 22 d1vqoe1 not modelled 8.5 11 Fold:Ribosomal protein L6 Superfamily:Ribosomal protein L6 Family:Ribosomal protein L6 23 c4a8aI_ not modelled 8.3 21 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 24 c1nh7A_ not modelled 8.2 33 PDB header:transferase Chain: A: PDB Molecule:atp phosphoribosyltransferase; PDBTitle: atp phosphoribosyltransferase (atp-prtase) from mycobacterium2 tuberculosis 25 d2f5ga1 not modelled 8.2 29 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 26 d1e3ha5 not modelled 8.1 30 Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like 27 c3stjC_ not modelled 7.8 22 PDB header:hydrolase Chain: C: PDB Molecule:protease degq; PDBTitle: crystal structure of the protease + pdz1 domain of degq from2 escherichia coli 28 d2oyza1 not modelled 7.8 23 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:VPA0057-like 29 d2nn6a2 not modelled 7.6 13 Fold:Ribonuclease PH domain 2-like Superfamily:Ribonuclease PH domain 2-like Family:Ribonuclease PH domain 2-like 30 d2ewoa1 not modelled 7.2 11 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 31 c3pm9A_ not modelled 6.8 32 PDB header:oxidoreductase Chain: A: PDB Molecule:putative oxidoreductase; PDBTitle: crystal structure of a putative dehydrogenase (rpa1076) from2 rhodopseudomonas palustris cga009 at 2.57 a resolution 32 d2fyxa1 not modelled 6.5 29 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 33 c3brcA_ not modelled 6.5 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein of unknown function; PDBTitle: crystal structure of a conserved protein of unknown function from2 methanobacterium thermoautotrophicum 34 c2qngA_ not modelled 6.3 20 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein sav2460; PDBTitle: crytal structure of unknown function protein sav2460 35 d2vjva1 not modelled 6.2 29 Fold:Ferredoxin-like Superfamily:Transposase IS200-like Family:Transposase IS200-like 36 d1xkna_ not modelled 6.2 9 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 37 d1kida_ not modelled 6.1 18 Fold:The "swivelling" beta/beta/alpha domain Superfamily:GroEL apical domain-like Family:GroEL-like chaperone, apical domain 38 d2cmua1 not modelled 5.8 9 Fold:Pentein, beta/alpha-propeller Superfamily:Pentein Family:Porphyromonas-type peptidylarginine deiminase 39 c2d3kA_ not modelled 5.8 31 PDB header:hydrolase Chain: A: PDB Molecule:peptidyl-trna hydrolase; PDBTitle: structural study on project id ph1539 from pyrococcus2 horikoshii ot3 40 d1sefa_ not modelled 5.3 10 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-like 41 c1sefA_ not modelled 5.3 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved hypothetical protein; PDBTitle: crystal structure of cupin domain protein ef2996 from enterococcus2 faecalis

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