Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	W	Y	M	R	W	E	G	V	S	D	G	L	K	V	T	A	G	S	V	I	Q	R	D	D	L	V	Q	Y	T	T	T	D	D	A	T	S	S	G	G	V	L	R	V	P	I	A	C	S	S	A	G	A	V	G	N	A	D	D	G
Secondary structure
SS confidence
Disorder		?						?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		T	A	L	I	L	V	T	P	V	N	G	L	P	S	S	G	V	A	D	T	L	T	G	G	F	D	T	E	E	L	E	T	W	R	A	R	V	I	E	R	Y	Y	W	T	P	Q	G	G	A	D	G	D	Y	V	V	W	A	K	E	V
Secondary structure
SS confidence
Disorder							?	?	?	?										?		?		?																		?		?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		P	G	I	T	R	A	W	T	Y	R	H	L	M	G	T	G	T	V	G	V	M	I	A	S	S	D	L	I	N	P	I	P	E	E	S	T	E	T	A	A	R	Q	H	I	G	P	L	A	P	V	A	G	S	D	L	Y	V	F	R	P
Secondary structure
SS confidence
Disorder																												?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		V	A	H	T	V	D	F	H	I	R	V	T	P	D	T	P	E	I	R	A	A	I	T	A	E	L	R	S	F	L	L	R	D	G	Y	P	Q	G	E	L	K	V	S	R	I	S	E	A	I	S	G	A	N	G	E	Y	S	H	Q	L
Secondary structure
SS confidence
Disorder																																					?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.
Sequence		L	A	P	V	D	N	I	S	I	A	K	N	E	L	A	V	L	G	T	I	S	W	T
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 3h3y chain F Region: 112 - 233 Aligned: 120 Modelled: 122 Confidence: 98.1% Identity: 13% PDB header:viral protein Chain: F: PDB Molecule:baseplate structural protein gp6; PDBTitle: fitting of the gp6 crystal structure into 3d cryo-em2 reconstruction of bacteriophage t4 star-shaped baseplate Phyre2 PDB 3etc chain B Region: 96 - 166 Aligned: 71 Modelled: 71 Confidence: 71.0% Identity: 7% PDB header:ligase Chain: B: PDB Molecule:amp-binding protein; PDBTitle: 2.1 a structure of acyl-adenylate synthetase from methanosarcina2 acetivorans containing a link between lys256 and cys298 Phyre2 PDB 3eyn chain B Region: 96 - 169 Aligned: 74 Modelled: 74 Confidence: 45.1% Identity: 9% PDB header:ligase Chain: B: PDB Molecule:acyl-coenzyme a synthetase acsm2a; PDBTitle: crystal structure of human acyl-coa synthetase medium-chain2 family member 2a (l64p mutation) in a complex with coa Phyre2 PDB 3ipl chain B Region: 96 - 170 Aligned: 74 Modelled: 75 Confidence: 44.2% Identity: 15% PDB header:ligase Chain: B: PDB Molecule:2-succinylbenzoate--coa ligase; PDBTitle: crystal structure of o-succinylbenzoic acid-coa ligase from2 staphylococcus aureus subsp. aureus mu50 Phyre2 PDB 3nyr chain A Region: 101 - 175 Aligned: 75 Modelled: 75 Confidence: 39.7% Identity: 11% PDB header:ligase Chain: A: PDB Molecule:malonyl-coa ligase; PDBTitle: malonyl-coa ligase ternary product complex with malonyl-coa and amp2 bound Phyre2 PDB 3dhv chain A Region: 96 - 170 Aligned: 75 Modelled: 75 Confidence: 33.7% Identity: 5% PDB header:ligase Chain: A: PDB Molecule:d-alanine-poly(phosphoribitol) ligase; PDBTitle: crystal structure of dlta protein in complex with d-alanine2 adenylate Phyre2 PDB 2d1t chain A Region: 96 - 177 Aligned: 82 Modelled: 82 Confidence: 32.6% Identity: 9% PDB header:oxidoreductase Chain: A: PDB Molecule:luciferin 4-monooxygenase; PDBTitle: crystal structure of the thermostable japanese firefly2 luciferase red-color emission s286n mutant complexed with3 high-energy intermediate analogue Phyre2 PDB 1amu chain A Region: 96 - 175 Aligned: 79 Modelled: 80 Confidence: 32.0% Identity: 8% Fold: Acetyl-CoA synthetase-like Superfamily: Acetyl-CoA synthetase-like Family: Acetyl-CoA synthetase-like Phyre2 PDB 1lci chain A Region: 101 - 177 Aligned: 77 Modelled: 77 Confidence: 25.8% Identity: 9% Fold: Acetyl-CoA synthetase-like Superfamily: Acetyl-CoA synthetase-like Family: Acetyl-CoA synthetase-like Phyre2 PDB 1amu chain B Region: 96 - 175 Aligned: 79 Modelled: 80 Confidence: 25.6% Identity: 8% PDB header:peptide synthetase Chain: B: PDB Molecule:gramicidin synthetase 1; PDBTitle: phenylalanine activating domain of gramicidin synthetase 12 in a complex with amp and phenylalanine Phyre2 PDB 3e7w chain A Region: 101 - 169 Aligned: 69 Modelled: 69 Confidence: 23.2% Identity: 9% PDB header:ligase Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1; PDBTitle: crystal structure of dlta: implications for the reaction2 mechanism of non-ribosomal peptide synthetase (nrps)3 adenylation domains Phyre2 PDB 1mdb chain A Region: 96 - 162 Aligned: 67 Modelled: 67 Confidence: 23.2% Identity: 7% Fold: Acetyl-CoA synthetase-like Superfamily: Acetyl-CoA synthetase-like Family: Acetyl-CoA synthetase-like Phyre2 PDB 3gqw chain B Region: 96 - 164 Aligned: 68 Modelled: 69 Confidence: 21.4% Identity: 12% PDB header:ligase Chain: B: PDB Molecule:fatty acid amp ligase; PDBTitle: crystal structure of a fatty acid amp ligase from e. coli with an acyl2 adenylate product bound Phyre2 PDB 1u9l chain A Region: 84 - 105 Aligned: 22 Modelled: 22 Confidence: 20.9% Identity: 23% Fold: SAM domain-like Superfamily: Rad51 N-terminal domain-like Family: NusA extra C-terminal domains Phyre2 PDB 1pg4 chain A Region: 110 - 169 Aligned: 60 Modelled: 60 Confidence: 18.8% Identity: 8% Fold: Acetyl-CoA synthetase-like Superfamily: Acetyl-CoA synthetase-like Family: Acetyl-CoA synthetase-like Phyre2 PDB 1xhj chain A Region: 150 - 210 Aligned: 61 Modelled: 61 Confidence: 17.6% Identity: 18% Fold: Alpha-lytic protease prodomain-like Superfamily: Fe-S cluster assembly (FSCA) domain-like Family: NifU C-terminal domain-like Phyre2 PDB 3l8c chain A Region: 108 - 170 Aligned: 63 Modelled: 63 Confidence: 12.5% Identity: 13% PDB header:ligase Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1; PDBTitle: structure of probable d-alanine--poly(phosphoribitol) ligase2 subunit-1 from streptococcus pyogenes Phyre2 PDB 2aj1 chain A Region: 223 - 253 Aligned: 31 Modelled: 31 Confidence: 10.0% Identity: 6% PDB header:hydrolase Chain: A: PDB Molecule:probable cadmium-transporting atpase; PDBTitle: solution structure of apocada Phyre2 PDB 2qif chain A domain 1 Region: 223 - 253 Aligned: 31 Modelled: 31 Confidence: 9.8% Identity: 3% Fold: Ferredoxin-like Superfamily: HMA, heavy metal-associated domain Family: HMA, heavy metal-associated domain Phyre2 PDB 2l3m chain A Region: 223 - 253 Aligned: 31 Modelled: 31 Confidence: 8.9% Identity: 10% PDB header:metal binding protein Chain: A: PDB Molecule:copper-ion-binding protein; PDBTitle: solution structure of the putative copper-ion-binding protein from2 bacillus anthracis str. ames Phyre2 1 c3h3yF_ 2 c3etcB_ 3 c3eynB_ 4 c3iplB_ 5 c3nyrA_ 6 c3dhvA_ 7 c2d1tA_ 8 d1amua_ 9 d1lcia_ 10 c1amuB_ 11 c3e7wA_ 12 d1mdba_ 13 c3gqwB_ 14 d1u9la_ 15 d1pg4a_ 16 d1xhja_ 17 c3l8cA_ 18 c2aj1A_ 19 d2qifa1 20 c2l3mA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44

Detailed template information

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

1 c3h3yF_ 98.1 13 PDB header:viral protein Chain: F: PDB Molecule:baseplate structural protein gp6; PDBTitle: fitting of the gp6 crystal structure into 3d cryo-em2 reconstruction of bacteriophage t4 star-shaped baseplate 2 c3etcB_ 71.0 7 PDB header:ligase Chain: B: PDB Molecule:amp-binding protein; PDBTitle: 2.1 a structure of acyl-adenylate synthetase from methanosarcina2 acetivorans containing a link between lys256 and cys298 3 c3eynB_ 45.1 9 PDB header:ligase Chain: B: PDB Molecule:acyl-coenzyme a synthetase acsm2a; PDBTitle: crystal structure of human acyl-coa synthetase medium-chain2 family member 2a (l64p mutation) in a complex with coa 4 c3iplB_ 44.2 15 PDB header:ligase Chain: B: PDB Molecule:2-succinylbenzoate--coa ligase; PDBTitle: crystal structure of o-succinylbenzoic acid-coa ligase from2 staphylococcus aureus subsp. aureus mu50 5 c3nyrA_ 39.7 11 PDB header:ligase Chain: A: PDB Molecule:malonyl-coa ligase; PDBTitle: malonyl-coa ligase ternary product complex with malonyl-coa and amp2 bound 6 c3dhvA_ 33.7 5 PDB header:ligase Chain: A: PDB Molecule:d-alanine-poly(phosphoribitol) ligase; PDBTitle: crystal structure of dlta protein in complex with d-alanine2 adenylate 7 c2d1tA_ 32.6 9 PDB header:oxidoreductase Chain: A: PDB Molecule:luciferin 4-monooxygenase; PDBTitle: crystal structure of the thermostable japanese firefly2 luciferase red-color emission s286n mutant complexed with3 high-energy intermediate analogue 8 d1amua_ 32.0 8 Fold:Acetyl-CoA synthetase-like Superfamily:Acetyl-CoA synthetase-like Family:Acetyl-CoA synthetase-like 9 d1lcia_ 25.8 9 Fold:Acetyl-CoA synthetase-like Superfamily:Acetyl-CoA synthetase-like Family:Acetyl-CoA synthetase-like 10 c1amuB_ 25.6 8 PDB header:peptide synthetase Chain: B: PDB Molecule:gramicidin synthetase 1; PDBTitle: phenylalanine activating domain of gramicidin synthetase 12 in a complex with amp and phenylalanine 11 c3e7wA_ 23.2 9 PDB header:ligase Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1; PDBTitle: crystal structure of dlta: implications for the reaction2 mechanism of non-ribosomal peptide synthetase (nrps)3 adenylation domains 12 d1mdba_ 23.2 7 Fold:Acetyl-CoA synthetase-like Superfamily:Acetyl-CoA synthetase-like Family:Acetyl-CoA synthetase-like 13 c3gqwB_ 21.4 12 PDB header:ligase Chain: B: PDB Molecule:fatty acid amp ligase; PDBTitle: crystal structure of a fatty acid amp ligase from e. coli with an acyl2 adenylate product bound 14 d1u9la_ 20.9 23 Fold:SAM domain-like Superfamily:Rad51 N-terminal domain-like Family:NusA extra C-terminal domains 15 d1pg4a_ 18.8 8 Fold:Acetyl-CoA synthetase-like Superfamily:Acetyl-CoA synthetase-like Family:Acetyl-CoA synthetase-like 16 d1xhja_ 17.6 18 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 17 c3l8cA_ 12.5 13 PDB header:ligase Chain: A: PDB Molecule:d-alanine--poly(phosphoribitol) ligase subunit 1; PDBTitle: structure of probable d-alanine--poly(phosphoribitol) ligase2 subunit-1 from streptococcus pyogenes 18 c2aj1A_ 10.0 6 PDB header:hydrolase Chain: A: PDB Molecule:probable cadmium-transporting atpase; PDBTitle: solution structure of apocada 19 d2qifa1 9.8 3 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 20 c2l3mA_ 8.9 10 PDB header:metal binding protein Chain: A: PDB Molecule:copper-ion-binding protein; PDBTitle: solution structure of the putative copper-ion-binding protein from2 bacillus anthracis str. ames 21 c3ni2A_ not modelled 8.8 7 PDB header:ligase Chain: A: PDB Molecule:4-coumarate:coa ligase; PDBTitle: crystal structures and enzymatic mechanisms of a populus tomentosa 4-2 coumarate:coa ligase 22 d1veha_ not modelled 8.6 12 Fold:Alpha-lytic protease prodomain-like Superfamily:Fe-S cluster assembly (FSCA) domain-like Family:NifU C-terminal domain-like 23 d1p6ta2 not modelled 7.3 13 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 24 c3qovD_ not modelled 7.2 9 PDB header:ligase Chain: D: PDB Molecule:phenylacetate-coenzyme a ligase; PDBTitle: crystal structure of a hypothetical acyl-coa ligase (bt_0428) from2 bacteroides thetaiotaomicron vpi-5482 at 2.20 a resolution 25 d1osda_ not modelled 7.0 13 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 26 c2y27B_ not modelled 7.0 6 PDB header:ligase Chain: B: PDB Molecule:phenylacetate-coenzyme a ligase; PDBTitle: crystal structure of paak1 in complex with atp from2 burkholderia cenocepacia 27 d1sb6a_ not modelled 7.0 10 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 28 c1y96D_ not modelled 6.8 9 PDB header:rna binding protein Chain: D: PDB Molecule:gem-associated protein 7; PDBTitle: crystal structure of the gemin6/gemin7 heterodimer from the2 human smn complex 29 d1ry2a_ not modelled 6.7 14 Fold:Acetyl-CoA synthetase-like Superfamily:Acetyl-CoA synthetase-like Family:Acetyl-CoA synthetase-like 30 c3l48B_ not modelled 6.6 16 PDB header:transport protein Chain: B: PDB Molecule:outer membrane usher protein papc; PDBTitle: crystal structure of the c-terminal domain of the papc usher 31 c2k2pA_ not modelled 6.5 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein atu1203; PDBTitle: solution nmr structure of protein atu1203 from agrobacterium2 tumefaciens. northeast structural genomics consortium (nesg) target3 att10, ontario center for structural proteomics target atc1183 32 c2kt2A_ not modelled 6.2 19 PDB header:oxidoreductase Chain: A: PDB Molecule:mercuric reductase; PDBTitle: structure of nmera, the n-terminal hma domain of tn501 mercuric2 reductase 33 c2ofhX_ not modelled 6.1 6 PDB header:hydrolase, membrane protein Chain: X: PDB Molecule:zinc-transporting atpase; PDBTitle: solution structure of the n-terminal domain of the zinc(ii) atpase2 ziaa in its apo form 34 c2v7bB_ not modelled 6.1 7 PDB header:ligase Chain: B: PDB Molecule:benzoate-coenzyme a ligase; PDBTitle: crystal structures of a benzoate coa ligase from2 burkholderia xenovorans lb400 35 d1mnta_ not modelled 6.1 6 Fold:Ribbon-helix-helix Superfamily:Ribbon-helix-helix Family:Arc/Mnt-like phage repressors 36 c1yjrA_ not modelled 5.7 10 PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the apo form of the sixth soluble2 domain a69p mutant of menkes protein 37 c3dxsX_ not modelled 5.6 10 PDB header:hydrolase Chain: X: PDB Molecule:copper-transporting atpase ran1; PDBTitle: crystal structure of a copper binding domain from hma7, a p-2 type atpase 38 d1cpza_ not modelled 5.3 19 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain 39 c2kkhA_ not modelled 5.2 10 PDB header:metal transport Chain: A: PDB Molecule:putative heavy metal transporter; PDBTitle: structure of the zinc binding domain of the atpase hma4 40 c2ga7A_ not modelled 5.2 16 PDB header:hydrolase Chain: A: PDB Molecule:copper-transporting atpase 1; PDBTitle: solution structure of the copper(i) form of the third metal-2 binding domain of atp7a protein (menkes disease protein) 41 c3laxA_ not modelled 5.2 3 PDB header:ligase Chain: A: PDB Molecule:phenylacetate-coenzyme a ligase; PDBTitle: the crystal structure of a domain of phenylacetate-coenzyme2 a ligase from bacteroides vulgatus atcc 8482 42 c3qu3A_ not modelled 5.1 9 PDB header:dna binding protein Chain: A: PDB Molecule:interferon regulatory factor 7; PDBTitle: crystal structure of irf-7 dbd apo form 43 c2uwjE_ not modelled 5.0 12 PDB header:chaperone Chain: E: PDB Molecule:type iii export protein psce; PDBTitle: structure of the heterotrimeric complex which regulates2 type iii secretion needle formation 44 d1q8la_ not modelled 5.0 16 Fold:Ferredoxin-like Superfamily:HMA, heavy metal-associated domain Family:HMA, heavy metal-associated domain

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