Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	N	H	F	G	K	G	L	M	A	G	L	K	A	T	H	A	D	S	A	V	N	V	T	K	F	C	A	D	Y	K	R	G	F	V	L	G	Y	S	H	R	M	Y	E	K	T	G	D	R	Q	L	S	A	W	E	A	G	I	L
Secondary structure
SS confidence
Disorder		?	?	?	?															?	?	?																									?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.
Sequence		T	R	R	Y	G	L	D	K	E	M	V	M	D	F	F	R	E	N	N	S	C	S	T	L	R	F	F	M	A	G	Y	R	L	E	N
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 2iec chain A domain 1 Region: 49 - 59 Aligned: 11 Modelled: 11 Confidence: 50.5% Identity: 55% Fold: MK0786-like Superfamily: MK0786-like Family: MK0786-like Phyre2 PDB 2ogf chain D Region: 49 - 59 Aligned: 11 Modelled: 11 Confidence: 50.1% Identity: 45% PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein mj0408; PDBTitle: crystal structure of protein mj0408 from methanococcus jannaschii,2 pfam duf372 Phyre2 PDB 2i52 chain A domain 1 Region: 49 - 59 Aligned: 11 Modelled: 11 Confidence: 45.1% Identity: 55% Fold: MK0786-like Superfamily: MK0786-like Family: MK0786-like Phyre2 PDB 2fef chain B Region: 14 - 67 Aligned: 54 Modelled: 54 Confidence: 33.5% Identity: 17% PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pa2201; PDBTitle: the crystal structure of protein pa2201 from pseudomonas aeruginosa Phyre2 PDB 3cum chain A domain 1 Region: 52 - 87 Aligned: 36 Modelled: 36 Confidence: 23.2% Identity: 19% Fold: 6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily: 6-phosphogluconate dehydrogenase C-terminal domain-like Family: Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain Phyre2 PDB 3e1r chain B Region: 49 - 68 Aligned: 20 Modelled: 20 Confidence: 12.4% Identity: 30% PDB header:cell cycle/transport protein Chain: B: PDB Molecule:centrosomal protein of 55 kda; PDBTitle: midbody targeting of the escrt machinery by a non-canonical2 coiled-coil in cep55 Phyre2 PDB 2c0s chain A domain 1 Region: 60 - 77 Aligned: 18 Modelled: 18 Confidence: 8.8% Identity: 33% Fold: ROP-like Superfamily: BAS1536-like Family: BAS1536-like Phyre2 PDB 2fef chain A domain 2 Region: 54 - 67 Aligned: 14 Modelled: 12 Confidence: 8.6% Identity: 43% Fold: PA2201 C-terminal domain-like Superfamily: PA2201 C-terminal domain-like Family: PA2201 C-terminal domain-like Phyre2 PDB 1vpd chain A domain 1 Region: 52 - 87 Aligned: 36 Modelled: 35 Confidence: 8.5% Identity: 19% Fold: 6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily: 6-phosphogluconate dehydrogenase C-terminal domain-like Family: Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain Phyre2 PDB 2gbb chain A Region: 56 - 78 Aligned: 23 Modelled: 16 Confidence: 8.0% Identity: 17% PDB header:isomerase Chain: A: PDB Molecule:putative chorismate mutase; PDBTitle: crystal structure of secreted chorismate mutase from2 yersinia pestis Phyre2 PDB 2cvz chain A domain 1 Region: 52 - 88 Aligned: 37 Modelled: 37 Confidence: 8.0% Identity: 11% Fold: 6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily: 6-phosphogluconate dehydrogenase C-terminal domain-like Family: Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain Phyre2 PDB 1du6 chain A Region: 43 - 75 Aligned: 33 Modelled: 33 Confidence: 7.4% Identity: 18% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 2kpe chain A Region: 8 - 13 Aligned: 6 Modelled: 6 Confidence: 7.3% Identity: 67% PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles Phyre2 PDB 2kpe chain B Region: 8 - 13 Aligned: 6 Modelled: 6 Confidence: 7.3% Identity: 67% PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles Phyre2 PDB 1jyo chain E Region: 46 - 85 Aligned: 40 Modelled: 40 Confidence: 7.1% Identity: 20% Fold: Non-globular alpha+beta subunits of globular proteins Superfamily: Non-globular alpha+beta subunits of globular proteins Family: Virulence effector SptP domain Phyre2 PDB 1y66 chain D Region: 59 - 77 Aligned: 19 Modelled: 19 Confidence: 6.8% Identity: 32% PDB header:de novo protein Chain: D: PDB Molecule:engrailed homeodomain; PDBTitle: dioxane contributes to the altered conformation and2 oligomerization state of a designed engrailed homeodomain3 variant Phyre2 PDB 1nos chain A Region: 80 - 95 Aligned: 14 Modelled: 16 Confidence: 6.5% Identity: 29% Fold: Nitric oxide (NO) synthase oxygenase domain Superfamily: Nitric oxide (NO) synthase oxygenase domain Family: Nitric oxide (NO) synthase oxygenase domain Phyre2 PDB 1x2n chain A domain 1 Region: 43 - 75 Aligned: 33 Modelled: 33 Confidence: 6.3% Identity: 15% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Homeodomain Phyre2 PDB 1om4 chain A Region: 80 - 95 Aligned: 14 Modelled: 16 Confidence: 6.2% Identity: 29% Fold: Nitric oxide (NO) synthase oxygenase domain Superfamily: Nitric oxide (NO) synthase oxygenase domain Family: Nitric oxide (NO) synthase oxygenase domain Phyre2 PDB 2iz1 chain C Region: 52 - 88 Aligned: 37 Modelled: 37 Confidence: 6.0% Identity: 22% PDB header:oxidoreductase Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating; PDBTitle: 6pdh complexed with pex inhibitor synchrotron data Phyre2 1 d2ieca1 2 c2ogfD_ 3 d2i52a1 4 c2fefB_ 5 d3cuma1 6 c3e1rB_ 7 d2c0sa1 8 d2fefa2 9 d1vpda1 10 c2gbbA_ 11 d2cvza1 12 d1du6a_ 13 c2kpeA_ 14 c2kpeB_ 15 d1jyoe_ 16 c1y66D_ 17 d1nosa_ 18 d1x2na1 19 d1om4a_ 20 c2iz1C_ 21 22 23 24 25 26 27 28 29 30 31 32 33

Detailed template information

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

1 d2ieca1 50.5 55 Fold:MK0786-like Superfamily:MK0786-like Family:MK0786-like 2 c2ogfD_ 50.1 45 PDB header:structural genomics, unknown function Chain: D: PDB Molecule:hypothetical protein mj0408; PDBTitle: crystal structure of protein mj0408 from methanococcus jannaschii,2 pfam duf372 3 d2i52a1 45.1 55 Fold:MK0786-like Superfamily:MK0786-like Family:MK0786-like 4 c2fefB_ 33.5 17 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:hypothetical protein pa2201; PDBTitle: the crystal structure of protein pa2201 from pseudomonas aeruginosa 5 d3cuma1 23.2 19 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain 6 c3e1rB_ 12.4 30 PDB header:cell cycle/transport protein Chain: B: PDB Molecule:centrosomal protein of 55 kda; PDBTitle: midbody targeting of the escrt machinery by a non-canonical2 coiled-coil in cep55 7 d2c0sa1 8.8 33 Fold:ROP-like Superfamily:BAS1536-like Family:BAS1536-like 8 d2fefa2 8.6 43 Fold:PA2201 C-terminal domain-like Superfamily:PA2201 C-terminal domain-like Family:PA2201 C-terminal domain-like 9 d1vpda1 8.5 19 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain 10 c2gbbA_ 8.0 17 PDB header:isomerase Chain: A: PDB Molecule:putative chorismate mutase; PDBTitle: crystal structure of secreted chorismate mutase from2 yersinia pestis 11 d2cvza1 8.0 11 Fold:6-phosphogluconate dehydrogenase C-terminal domain-like Superfamily:6-phosphogluconate dehydrogenase C-terminal domain-like Family:Hydroxyisobutyrate and 6-phosphogluconate dehydrogenase domain 12 d1du6a_ 7.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 13 c2kpeA_ 7.3 67 PDB header:membrane protein Chain: A: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 14 c2kpeB_ 7.3 67 PDB header:membrane protein Chain: B: PDB Molecule:glycophorin-a; PDBTitle: refined structure of glycophorin a transmembrane segment dimer in dpc2 micelles 15 d1jyoe_ 7.1 20 Fold:Non-globular alpha+beta subunits of globular proteins Superfamily:Non-globular alpha+beta subunits of globular proteins Family:Virulence effector SptP domain 16 c1y66D_ 6.8 32 PDB header:de novo protein Chain: D: PDB Molecule:engrailed homeodomain; PDBTitle: dioxane contributes to the altered conformation and2 oligomerization state of a designed engrailed homeodomain3 variant 17 d1nosa_ 6.5 29 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 18 d1x2na1 6.3 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 19 d1om4a_ 6.2 29 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 20 c2iz1C_ 6.0 22 PDB header:oxidoreductase Chain: C: PDB Molecule:6-phosphogluconate dehydrogenase, decarboxylating; PDBTitle: 6pdh complexed with pex inhibitor synchrotron data 21 c2flqA_ not modelled 6.0 38 PDB header:oxidoreductase Chain: A: PDB Molecule:nitric oxide synthase; PDBTitle: crystal structure of nitric oxide synthase from geobacillus2 stearothermophilus (atcc 12980) complexed with l-arginine 22 c1afoB_ not modelled 5.8 67 PDB header:integral membrane protein Chain: B: PDB Molecule:glycophorin a; PDBTitle: dimeric transmembrane domain of human glycophorin a, nmr,2 20 structures 23 c1fooA_ not modelled 5.8 36 PDB header:oxidoreductase Chain: A: PDB Molecule:nitric-oxide synthase; PDBTitle: bovine endothelial nitric oxide synthase heme domain complexed with l-2 arg and no(h4b-free) 24 d2r5yb1 not modelled 5.8 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 25 d2bzba1 not modelled 5.5 36 Fold:ROP-like Superfamily:BAS1536-like Family:BAS1536-like 26 d3e7ma1 not modelled 5.5 29 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 27 d3e7ga1 not modelled 5.5 29 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 28 d1pufb_ not modelled 5.4 18 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 29 d1k61a_ not modelled 5.3 9 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Homeodomain 30 d2gboa1 not modelled 5.2 30 Fold:Open three-helical up-and-down bundle Superfamily:EF2458-like Family:EF2458-like 31 c2gboB_ not modelled 5.2 30 PDB header:structural genomics, unknown function Chain: B: PDB Molecule:upf0358 protein ef2458; PDBTitle: protein of unknown function ef2458 from enterococcus faecalis 32 d1m9ma_ not modelled 5.1 36 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase domain 33 d1q2oa_ not modelled 5.1 36 Fold:Nitric oxide (NO) synthase oxygenase domain Superfamily:Nitric oxide (NO) synthase oxygenase domain Family:Nitric oxide (NO) synthase oxygenase 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