Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	S	D	N	L	P	W	K	T	W	T	P	D	D	L	A	P	P	Q	A	E	F	V	P	I	V	E	P	E	E	T	I	I	E	E	A	E	P	S	L	E	Q	Q	L	A	Q	L	Q	M	Q	A	H	E	Q	G	Y	Q	A	G	I
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?			?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		A	E	G	R	Q	Q	G	H	K	Q	G	Y	Q	E	G	L	A	Q	G	L	E	Q	G	L	A	E	A	K	S	Q	Q	A	P	I	H	A	R	M	Q	Q	L	V	S	E	F	Q	T	T	L	D	A	L	D	S	V	I	A	S	R	L
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		M	Q	M	A	L	E	A	A	R	Q	V	I	G	Q	T	P	T	V	D	N	S	A	L	I	K	Q	I	Q	Q	L	L	Q	Q	E	P	L	F	S	G	K	P	Q	L	R	V	H	P	D	D	L	Q	R	V	D	D	M	L	G	A	T
Secondary structure
SS confidence
Disorder																																					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.
Sequence		L	S	L	H	G	W	R	L	R	G	D	P	T	L	H	P	G	G	C	K	V	S	A	D	E	G	D	L	D	A	S	V	A	T	R	W	Q	E	L	C	R	L	A	A	P	G	V	V
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 3k5b chain E Region: 41 - 225 Aligned: 169 Modelled: 184 Confidence: 98.5% Identity: 14% PDB header:hydrolase Chain: E: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase Phyre2 PDB 2dm9 chain A domain 1 Region: 120 - 225 Aligned: 104 Modelled: 104 Confidence: 98.3% Identity: 13% Fold: FwdE/GAPDH domain-like Superfamily: V-type ATPase subunit E-like Family: V-type ATPase subunit E Phyre2 PDB 2dm9 chain B Region: 120 - 225 Aligned: 104 Modelled: 104 Confidence: 98.3% Identity: 13% PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of ph1978 from pyrococcus horikoshii ot3 Phyre2 PDB 3lg8 chain B Region: 137 - 227 Aligned: 89 Modelled: 91 Confidence: 97.0% Identity: 22% PDB header:hydrolase Chain: B: PDB Molecule:a-type atp synthase subunit e; PDBTitle: crystal structure of the c-terminal part of subunit e (e101-206) from2 methanocaldococcus jannaschii of a1ao atp synthase Phyre2 PDB 2lc0 chain A Region: 160 - 203 Aligned: 44 Modelled: 44 Confidence: 90.9% Identity: 18% PDB header:protein binding Chain: A: PDB Molecule:putative uncharacterized protein tb39.8; PDBTitle: rv0020c_nter structure Phyre2 PDB 2c4r chain L Region: 138 - 202 Aligned: 65 Modelled: 65 Confidence: 53.6% Identity: 17% PDB header:hydrolase Chain: L: PDB Molecule:ribonuclease e; PDBTitle: catalytic domain of e. coli rnase e Phyre2 PDB 3sft chain A Region: 144 - 201 Aligned: 58 Modelled: 58 Confidence: 23.6% Identity: 12% PDB header:hydrolase Chain: A: PDB Molecule:chemotaxis response regulator protein-glutamate PDBTitle: crystal structure of thermotoga maritima cheb methylesterase catalytic2 domain Phyre2 PDB 2rrl chain A Region: 139 - 225 Aligned: 74 Modelled: 87 Confidence: 22.6% Identity: 20% PDB header:protein transport Chain: A: PDB Molecule:flagellar hook-length control protein; PDBTitle: solution structure of the c-terminal domain of the flik Phyre2 PDB 3bzk chain A domain 2 Region: 164 - 180 Aligned: 17 Modelled: 17 Confidence: 21.1% Identity: 29% Fold: SAM domain-like Superfamily: RuvA domain 2-like Family: Tex HhH-containing domain-like Phyre2 PDB 1y5i chain A domain 1 Region: 151 - 201 Aligned: 51 Modelled: 51 Confidence: 20.1% Identity: 16% Fold: Double psi beta-barrel Superfamily: ADC-like Family: Formate dehydrogenase/DMSO reductase, C-terminal domain Phyre2 PDB 1zy9 chain A domain 1 Region: 6 - 28 Aligned: 23 Modelled: 23 Confidence: 17.1% Identity: 22% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: YicI N-terminal domain-like Phyre2 PDB 2e0z chain A Region: 139 - 209 Aligned: 71 Modelled: 71 Confidence: 16.7% Identity: 10% PDB header:virus like particle Chain: A: PDB Molecule:virus-like particle; PDBTitle: crystal structure of virus-like particle from pyrococcus2 furiosus Phyre2 PDB 2jio chain A domain 1 Region: 154 - 206 Aligned: 53 Modelled: 53 Confidence: 16.5% Identity: 13% Fold: Double psi beta-barrel Superfamily: ADC-like Family: Formate dehydrogenase/DMSO reductase, C-terminal domain Phyre2 PDB 1p9q chain C domain 3 Region: 160 - 207 Aligned: 45 Modelled: 48 Confidence: 15.8% Identity: 13% Fold: Ferredoxin-like Superfamily: EF-G C-terminal domain-like Family: Hypothetical protein AF0491, C-terminal domain Phyre2 PDB 2a45 chain J Region: 196 - 223 Aligned: 28 Modelled: 28 Confidence: 14.1% Identity: 18% 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 Phyre2 PDB 1t95 chain A domain 3 Region: 160 - 207 Aligned: 45 Modelled: 47 Confidence: 12.7% Identity: 13% Fold: Ferredoxin-like Superfamily: EF-G C-terminal domain-like Family: Hypothetical protein AF0491, C-terminal domain Phyre2 PDB 3dkt chain D Region: 139 - 209 Aligned: 70 Modelled: 71 Confidence: 12.6% Identity: 17% PDB header:structural protein/virus like particle Chain: D: PDB Molecule:maritimacin; PDBTitle: crystal structure of thermotoga maritima encapsulin Phyre2 PDB 3tr6 chain A Region: 150 - 226 Aligned: 77 Modelled: 76 Confidence: 12.3% Identity: 18% PDB header:transferase Chain: A: PDB Molecule:o-methyltransferase; PDBTitle: structure of a o-methyltransferase from coxiella burnetii Phyre2 PDB 3u7j chain A Region: 157 - 228 Aligned: 67 Modelled: 72 Confidence: 11.5% Identity: 21% PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-phosphate isomerase a from burkholderia2 thailandensis Phyre2 PDB 2iv2 chain X domain 1 Region: 162 - 206 Aligned: 45 Modelled: 45 Confidence: 11.2% Identity: 16% Fold: Double psi beta-barrel Superfamily: ADC-like Family: Formate dehydrogenase/DMSO reductase, C-terminal domain Phyre2 1 c3k5bE_ 2 d2dm9a1 3 c2dm9B_ 4 c3lg8B_ 5 c2lc0A_ 6 c2c4rL_ 7 c3sftA_ 8 c2rrlA_ 9 d3bzka2 10 d1y5ia1 11 d1zy9a1 12 c2e0zA_ 13 d2jioa1 14 d1p9qc3 15 c2a45J_ 16 d1t95a3 17 c3dktD_ 18 c3tr6A_ 19 c3u7jA_ 20 d2iv2x1 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

Detailed template information

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

1 c3k5bE_ 98.5 14 PDB header:hydrolase Chain: E: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of the peripheral stalk of thermus thermophilus h+-2 atpase/synthase 2 d2dm9a1 98.3 13 Fold:FwdE/GAPDH domain-like Superfamily:V-type ATPase subunit E-like Family:V-type ATPase subunit E 3 c2dm9B_ 98.3 13 PDB header:hydrolase Chain: B: PDB Molecule:v-type atp synthase subunit e; PDBTitle: crystal structure of ph1978 from pyrococcus horikoshii ot3 4 c3lg8B_ 97.0 22 PDB header:hydrolase Chain: B: PDB Molecule:a-type atp synthase subunit e; PDBTitle: crystal structure of the c-terminal part of subunit e (e101-206) from2 methanocaldococcus jannaschii of a1ao atp synthase 5 c2lc0A_ 90.9 18 PDB header:protein binding Chain: A: PDB Molecule:putative uncharacterized protein tb39.8; PDBTitle: rv0020c_nter structure 6 c2c4rL_ 53.6 17 PDB header:hydrolase Chain: L: PDB Molecule:ribonuclease e; PDBTitle: catalytic domain of e. coli rnase e 7 c3sftA_ 23.6 12 PDB header:hydrolase Chain: A: PDB Molecule:chemotaxis response regulator protein-glutamate PDBTitle: crystal structure of thermotoga maritima cheb methylesterase catalytic2 domain 8 c2rrlA_ 22.6 20 PDB header:protein transport Chain: A: PDB Molecule:flagellar hook-length control protein; PDBTitle: solution structure of the c-terminal domain of the flik 9 d3bzka2 21.1 29 Fold:SAM domain-like Superfamily:RuvA domain 2-like Family:Tex HhH-containing domain-like 10 d1y5ia1 20.1 16 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 11 d1zy9a1 17.1 22 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:YicI N-terminal domain-like 12 c2e0zA_ 16.7 10 PDB header:virus like particle Chain: A: PDB Molecule:virus-like particle; PDBTitle: crystal structure of virus-like particle from pyrococcus2 furiosus 13 d2jioa1 16.5 13 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 14 d1p9qc3 15.8 13 Fold:Ferredoxin-like Superfamily:EF-G C-terminal domain-like Family:Hypothetical protein AF0491, C-terminal domain 15 c2a45J_ 14.1 18 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 16 d1t95a3 12.7 13 Fold:Ferredoxin-like Superfamily:EF-G C-terminal domain-like Family:Hypothetical protein AF0491, C-terminal domain 17 c3dktD_ 12.6 17 PDB header:structural protein/virus like particle Chain: D: PDB Molecule:maritimacin; PDBTitle: crystal structure of thermotoga maritima encapsulin 18 c3tr6A_ 12.3 18 PDB header:transferase Chain: A: PDB Molecule:o-methyltransferase; PDBTitle: structure of a o-methyltransferase from coxiella burnetii 19 c3u7jA_ 11.5 21 PDB header:isomerase Chain: A: PDB Molecule:ribose-5-phosphate isomerase a; PDBTitle: crystal structure of ribose-5-phosphate isomerase a from burkholderia2 thailandensis 20 d2iv2x1 11.2 16 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 21 d1pkxa1 not modelled 10.2 10 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase 22 d2q22a1 not modelled 8.8 12 Fold:Ava3019-like Superfamily:Ava3019-like Family:Ava3019-like 23 c3h9xB_ not modelled 8.2 12 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:uncharacterized protein pspto_3016; PDBTitle: crystal structure of the pspto_3016 protein from2 pseudomonas syringae, northeast structural genomics3 consortium target psr293 24 c3cagF_ not modelled 7.7 16 PDB header:dna binding protein Chain: F: PDB Molecule:arginine repressor; PDBTitle: crystal structure of the oligomerization domain hexamer of the2 arginine repressor protein from mycobacterium tuberculosis in complex3 with 9 arginines. 25 d2b0ja2 not modelled 7.7 13 Fold:NAD(P)-binding Rossmann-fold domains Superfamily:NAD(P)-binding Rossmann-fold domains Family:6-phosphogluconate dehydrogenase-like, N-terminal domain 26 c2ki8A_ not modelled 7.5 10 PDB header:oxidoreductase Chain: A: PDB Molecule:tungsten formylmethanofuran dehydrogenase, PDBTitle: solution nmr structure of tungsten formylmethanofuran2 dehydrogenase subunit d from archaeoglobus fulgidus,3 northeast structural genomics consortium target att7 27 c3cbnA_ not modelled 7.4 11 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:conserved protein mth639; PDBTitle: crystal structure of a conserved protein (mth639) from2 methanobacterium thermoautotrophicum 28 d1uv7a_ not modelled 7.3 12 Fold:RRF/tRNA synthetase additional domain-like Superfamily:General secretion pathway protein M, EpsM Family:General secretion pathway protein M, EpsM 29 c1uv7A_ not modelled 7.3 12 PDB header:transport Chain: A: PDB Molecule:general secretion pathway protein m; PDBTitle: periplasmic domain of epsm from vibrio cholerae 30 d1go3e2 not modelled 7.1 21 Fold:Dodecin subunit-like Superfamily:N-terminal, heterodimerisation domain of RBP7 (RpoE) Family:N-terminal, heterodimerisation domain of RBP7 (RpoE) 31 d2c35b2 not modelled 7.1 17 Fold:Dodecin subunit-like Superfamily:N-terminal, heterodimerisation domain of RBP7 (RpoE) Family:N-terminal, heterodimerisation domain of RBP7 (RpoE) 32 c3ebrA_ not modelled 6.9 30 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized rmlc-like cupin; PDBTitle: crystal structure of an rmlc-like cupin protein (reut_a0381) from2 ralstonia eutropha jmp134 at 2.60 a resolution 33 c3sb1B_ not modelled 6.8 23 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hydrogenase expression protein; PDBTitle: hydrogenase expression protein huph from thiobacillus denitrificans2 atcc 25259 34 c3ereD_ not modelled 6.3 14 PDB header:dna binding protein/dna Chain: D: PDB Molecule:arginine repressor; PDBTitle: crystal structure of the arginine repressor protein from mycobacterium2 tuberculosis in complex with the dna operator 35 d1chda_ not modelled 5.9 17 Fold:Methylesterase CheB, C-terminal domain Superfamily:Methylesterase CheB, C-terminal domain Family:Methylesterase CheB, C-terminal domain 36 d1dmra1 not modelled 5.8 18 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 37 c3a6mB_ not modelled 5.8 20 PDB header:chaperone Chain: B: PDB Molecule:protein grpe; PDBTitle: crystal structure of grpe from thermus thermophilus hb8 38 d1tmoa1 not modelled 5.6 12 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 39 d1l2pa_ not modelled 5.5 11 Fold:Single transmembrane helix Superfamily:F1F0 ATP synthase subunit B, membrane domain Family:F1F0 ATP synthase subunit B, membrane domain 40 d1ogya1 not modelled 5.4 17 Fold:Double psi beta-barrel Superfamily:ADC-like Family:Formate dehydrogenase/DMSO reductase, C-terminal domain 41 d1ou0a_ not modelled 5.2 13 Fold:Flavodoxin-like Superfamily:Precorrin-8X methylmutase CbiC/CobH Family:Precorrin-8X methylmutase CbiC/CobH 42 d1cwpa_ not modelled 5.1 13 Fold:Nucleoplasmin-like/VP (viral coat and capsid proteins) Superfamily:Positive stranded ssRNA viruses Family:Bromoviridae-like VP 43 d1a8ya3 not modelled 5.1 14 Fold:Thioredoxin fold Superfamily:Thioredoxin-like Family:Calsequestrin 44 d1g8ma1 not modelled 5.1 10 Fold:Methylglyoxal synthase-like Superfamily:Methylglyoxal synthase-like Family:Inosicase 45 c3cxbA_ not modelled 5.1 22 PDB header:signaling protein Chain: A: PDB Molecule:protein sifa; PDBTitle: crystal structure of sifa and skip

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