Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	K	T	A	I	A	L	L	A	L	L	A	S	S	A	S	L	A	A	T	P	W	Q	K	I	T	Q	P	V	P	G	S	A	Q	S	I	G	S	F	S	N	G	C	I	V	G	A	D	T	L	P	I	Q	S	E	H	Y	Q	V
Secondary structure
SS confidence
Disorder		?	?	?												?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?									?			?	?		?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	R	T	D	Q	R	R	Y	F	G	H	P	D	L	V	M	F	I	Q	R	L	S	S	Q	V	S	N	L	G	M	G	T	V	L	I	G	D	M	G	M	P	A	G	G	R	F	N	G	G	H	A	S	H	Q	T	G	L	D	V	D
Secondary structure
SS confidence
Disorder																													?		?													?		?	?	?	?	?		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		I	F	L	Q	L	P	K	T	R	W	T	S	A	Q	L	L	R	P	Q	A	L	D	L	V	S	R	D	G	K	H	V	V	S	T	L	W	K	P	E	I	F	S	L	I	K	L	A	A	Q	D	K	D	V	T	R	I	F	V	N	P
Secondary structure
SS confidence
Disorder								?	?	?	?	?	?	?	?	?	?	?	?				?				?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		A	I	K	Q	Q	L	C	L	D	A	G	T	D	R	D	W	L	R	K	V	R	P	W	F	Q	H	R	A	H	M	H	V	R	L	R	C	P	A	D	S	L	E	C	E	D	Q	P	L	P	P	S	G	D	G	C	G	A	E	L	Q
Secondary structure
SS confidence
Disorder													?	?	?	?		?			?				?														?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.	.	.	.
Sequence		S	W	F	E	P	P	K	P	G	T	T	K	P	E	K	K	T	P	P	P	L	P	P	S	C	Q	A	L	L	D	E	H	V	I
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 1tzp chain A Region: 20 - 274 Aligned: 240 Modelled: 240 Confidence: 100.0% Identity: 100% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: MepA-like Phyre2 PDB 2vo9 chain C Region: 71 - 129 Aligned: 59 Modelled: 59 Confidence: 80.3% Identity: 17% 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: 66 - 129 Aligned: 64 Modelled: 64 Confidence: 41.6% Identity: 16% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: VanY-like Phyre2 PDB 1r44 chain A Region: 107 - 171 Aligned: 65 Modelled: 65 Confidence: 39.2% Identity: 17% Fold: Hedgehog/DD-peptidase Superfamily: Hedgehog/DD-peptidase Family: VanX-like Phyre2 PDB 1lbu chain A Region: 203 - 213 Aligned: 11 Modelled: 11 Confidence: 33.4% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase; PDBTitle: hydrolase metallo (zn) dd-peptidase Phyre2 PDB 3ag5 chain A Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 25.2% Identity: 22% PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantothenate synthetase from staphylococcus2 aureus Phyre2 PDB 1iho chain A Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 23.3% Identity: 39% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) Phyre2 PDB 1v8f chain A Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 22.4% Identity: 30% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) Phyre2 PDB 2fao chain B Region: 55 - 147 Aligned: 90 Modelled: 93 Confidence: 20.9% Identity: 10% PDB header:hydrolase/transferase Chain: B: PDB Molecule:probable atp-dependent dna ligase; PDBTitle: crystal structure of pseudomonas aeruginosa ligd polymerase2 domain Phyre2 PDB 3inn chain B Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 20.7% Identity: 35% PDB header:ligase Chain: B: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine-ligase in complex2 with atp at low occupancy at 2.1 a resolution Phyre2 PDB 3uk2 chain B Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 19.6% Identity: 48% PDB header:ligase Chain: B: PDB Molecule:pantothenate synthetase; PDBTitle: the structure of pantothenate synthetase from burkholderia2 thailandensis Phyre2 PDB 2ejc chain A Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 19.3% Identity: 39% PDB header:ligase Chain: A: PDB Molecule:pantoate--beta-alanine ligase; PDBTitle: crystal structure of pantoate--beta-alanine ligase (panc)2 from thermotoga maritima Phyre2 PDB 2a84 chain A domain 1 Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 18.6% Identity: 35% Fold: Adenine nucleotide alpha hydrolase-like Superfamily: Nucleotidylyl transferase Family: Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) Phyre2 PDB 3n8h chain A Region: 158 - 180 Aligned: 23 Modelled: 23 Confidence: 18.4% Identity: 48% PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine ligase from francisella2 tularensis Phyre2 PDB 3mxt chain A Region: 158 - 193 Aligned: 36 Modelled: 36 Confidence: 15.5% Identity: 44% PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine ligase from campylobacter2 jejuni Phyre2 PDB 3c7b chain A Region: 208 - 219 Aligned: 12 Modelled: 12 Confidence: 15.0% Identity: 33% PDB header:oxidoreductase Chain: A: PDB Molecule:sulfite reductase, dissimilatory-type subunit alpha; PDBTitle: structure of the dissimilatory sulfite reductase from archaeoglobus2 fulgidus Phyre2 PDB 2iru chain A Region: 55 - 142 Aligned: 85 Modelled: 88 Confidence: 14.8% Identity: 8% PDB header:transferase Chain: A: PDB Molecule:putative dna ligase-like protein rv0938/mt0965; PDBTitle: crystal structure of the polymerase domain from mycobacterium2 tuberculosis ligase d Phyre2 PDB 2cwz chain A domain 1 Region: 69 - 92 Aligned: 24 Modelled: 24 Confidence: 14.8% Identity: 4% Fold: Thioesterase/thiol ester dehydrase-isomerase Superfamily: Thioesterase/thiol ester dehydrase-isomerase Family: TTHA0967-like Phyre2 PDB 1nkg chain A domain 3 Region: 103 - 125 Aligned: 23 Modelled: 23 Confidence: 12.7% Identity: 22% Fold: Supersandwich Superfamily: Galactose mutarotase-like Family: Rhamnogalacturonase B, RhgB, N-terminal domain Phyre2 PDB 1x9v chain A Region: 70 - 105 Aligned: 36 Modelled: 36 Confidence: 12.1% Identity: 19% PDB header:viral protein Chain: A: PDB Molecule:vpr protein; PDBTitle: dimeric structure of the c-terminal domain of vpr Phyre2 1 d1tzpa_ 2 c2vo9C_ 3 d2vo9a1 4 d1r44a_ 5 c1lbuA_ 6 c3ag5A_ 7 d1ihoa_ 8 d1v8fa_ 9 c2faoB_ 10 c3innB_ 11 c3uk2B_ 12 c2ejcA_ 13 d2a84a1 14 c3n8hA_ 15 c3mxtA_ 16 c3c7bA_ 17 c2iruA_ 18 d2cwza1 19 d1nkga3 20 c1x9vA_ 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43

Detailed template information

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

1 d1tzpa_ 100.0 100 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:MepA-like 2 c2vo9C_ 80.3 17 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 3 d2vo9a1 41.6 16 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:VanY-like 4 d1r44a_ 39.2 17 Fold:Hedgehog/DD-peptidase Superfamily:Hedgehog/DD-peptidase Family:VanX-like 5 c1lbuA_ 33.4 36 PDB header:hydrolase Chain: A: PDB Molecule:muramoyl-pentapeptide carboxypeptidase; PDBTitle: hydrolase metallo (zn) dd-peptidase 6 c3ag5A_ 25.2 22 PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantothenate synthetase from staphylococcus2 aureus 7 d1ihoa_ 23.3 39 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) 8 d1v8fa_ 22.4 30 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) 9 c2faoB_ 20.9 10 PDB header:hydrolase/transferase Chain: B: PDB Molecule:probable atp-dependent dna ligase; PDBTitle: crystal structure of pseudomonas aeruginosa ligd polymerase2 domain 10 c3innB_ 20.7 35 PDB header:ligase Chain: B: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine-ligase in complex2 with atp at low occupancy at 2.1 a resolution 11 c3uk2B_ 19.6 48 PDB header:ligase Chain: B: PDB Molecule:pantothenate synthetase; PDBTitle: the structure of pantothenate synthetase from burkholderia2 thailandensis 12 c2ejcA_ 19.3 39 PDB header:ligase Chain: A: PDB Molecule:pantoate--beta-alanine ligase; PDBTitle: crystal structure of pantoate--beta-alanine ligase (panc)2 from thermotoga maritima 13 d2a84a1 18.6 35 Fold:Adenine nucleotide alpha hydrolase-like Superfamily:Nucleotidylyl transferase Family:Pantothenate synthetase (Pantoate-beta-alanine ligase, PanC) 14 c3n8hA_ 18.4 48 PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine ligase from francisella2 tularensis 15 c3mxtA_ 15.5 44 PDB header:ligase Chain: A: PDB Molecule:pantothenate synthetase; PDBTitle: crystal structure of pantoate-beta-alanine ligase from campylobacter2 jejuni 16 c3c7bA_ 15.0 33 PDB header:oxidoreductase Chain: A: PDB Molecule:sulfite reductase, dissimilatory-type subunit alpha; PDBTitle: structure of the dissimilatory sulfite reductase from archaeoglobus2 fulgidus 17 c2iruA_ 14.8 8 PDB header:transferase Chain: A: PDB Molecule:putative dna ligase-like protein rv0938/mt0965; PDBTitle: crystal structure of the polymerase domain from mycobacterium2 tuberculosis ligase d 18 d2cwza1 14.8 4 Fold:Thioesterase/thiol ester dehydrase-isomerase Superfamily:Thioesterase/thiol ester dehydrase-isomerase Family:TTHA0967-like 19 d1nkga3 12.7 22 Fold:Supersandwich Superfamily:Galactose mutarotase-like Family:Rhamnogalacturonase B, RhgB, N-terminal domain 20 c1x9vA_ 12.1 19 PDB header:viral protein Chain: A: PDB Molecule:vpr protein; PDBTitle: dimeric structure of the c-terminal domain of vpr 21 d1ujpa_ not modelled 12.0 19 Fold:TIM beta/alpha-barrel Superfamily:Ribulose-phoshate binding barrel Family:Tryptophan biosynthesis enzymes 22 d2o8ra3 not modelled 11.8 32 Fold:Phospholipase D/nuclease Superfamily:Phospholipase D/nuclease Family:Polyphosphate kinase C-terminal domain 23 c2jksA_ not modelled 11.4 17 PDB header:immune system Chain: A: PDB Molecule:bradyzoite surface antigen bsr4; PDBTitle: crystal structure of the the bradyzoite specific antigen2 bsr4 from toxoplasma gondii. 24 c2zuuA_ not modelled 9.8 18 PDB header:transferase Chain: A: PDB Molecule:lacto-n-biose phosphorylase; PDBTitle: crystal structure of galacto-n-biose/lacto-n-biose i phosphorylase in2 complex with glcnac 25 c3kuvB_ not modelled 9.7 8 PDB header:hydrolase Chain: B: PDB Molecule:fluoroacetyl coenzyme a thioesterase; PDBTitle: structural basis of the activity and substrate specificity of the2 fluoroacetyl-coa thioesterase flk - t42s mutant in complex with3 acetate. 26 d2v4ja2 not modelled 9.3 50 Fold:Ferredoxin-like Superfamily:Nitrite/Sulfite reductase N-terminal domain-like Family:DsrA/DsrB N-terminal-domain-like 27 c3qooA_ not modelled 8.6 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of hot-dog-like taci_0573 protein from2 thermanaerovibrio acidaminovorans 28 d1gvia1 not modelled 7.3 19 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 29 c2x2zE_ not modelled 6.6 42 PDB header:membrane protein Chain: E: PDB Molecule:apical membrane antigen 1, putative; PDBTitle: crystal structure ama1 from toxoplasma gondii 30 c3navB_ not modelled 6.5 18 PDB header:lyase Chain: B: PDB Molecule:tryptophan synthase alpha chain; PDBTitle: crystal structure of an alpha subunit of tryptophan synthase from2 vibrio cholerae o1 biovar el tor str. n16961 31 d1wzla1 not modelled 6.4 33 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 32 d1pvta_ not modelled 6.0 17 Fold:AraD/HMP-PK domain-like Superfamily:AraD/HMP-PK domain-like Family:AraD-like aldolase/epimerase 33 d1j0ha1 not modelled 6.0 31 Fold:Immunoglobulin-like beta-sandwich Superfamily:E set domains Family:E-set domains of sugar-utilizing enzymes 34 d1c25a_ not modelled 5.8 25 Fold:Rhodanese/Cell cycle control phosphatase Superfamily:Rhodanese/Cell cycle control phosphatase Family:Cell cycle control phosphatase, catalytic domain 35 d1txla_ not modelled 5.6 29 Fold:Lipocalins Superfamily:Lipocalins Family:Hypothetical protein YodA 36 c1txlA_ not modelled 5.6 29 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:metal-binding protein yoda; PDBTitle: crystal structure of metal-binding protein yoda from e.2 coli, pfam duf149 37 c2q8aA_ not modelled 5.5 33 PDB header:immune system Chain: A: PDB Molecule:apical membrane antigen 1; PDBTitle: structure of the malaria antigen ama1 in complex with a growth-2 inhibitory antibody 38 c2w82C_ not modelled 5.4 45 PDB header:replication inhibitor Chain: C: PDB Molecule:orf18; PDBTitle: the structure of arda 39 d1dqaa1 not modelled 5.4 8 Fold:Ferredoxin-like Superfamily:NAD-binding domain of HMG-CoA reductase Family:NAD-binding domain of HMG-CoA reductase 40 d1gqpa_ not modelled 5.3 27 Fold:Galactose-binding domain-like Superfamily:Galactose-binding domain-like Family:APC10-like 41 c1h4uA_ not modelled 5.1 17 PDB header:extracellular matrix protein Chain: A: PDB Molecule:nidogen-1; PDBTitle: domain g2 of mouse nidogen-1 42 c2l57A_ not modelled 5.1 22 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: solution structure of an uncharacterized thioredoin-like protein from2 clostridium perfringens 43 d1xuba1 not modelled 5.0 17 Fold:Diaminopimelate epimerase-like Superfamily:Diaminopimelate epimerase-like Family:PhzC/PhzF-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