Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	I	V	F	I	E	Q	L	S	V	I	T	T	I	G	V	Y	D	W	E	Q	T	I	E	Q	K	L	V	F	D	I	E	M	A	W	D	N	R	K	A	A	K	S	D	D	V	A	D	C	L	S	Y	A	D	I	A	E	T	V
Secondary structure
SS confidence
Disorder		?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		V	S	H	V	E	G	A	R	F	A	L	V	E	R	V	A	E	E	V	A	E	L	L	L	A	R	F	N	S	P	W	V	R	I	K	L	S	K	P	G	A	V	A	R	A	A	N	V	G	V	I	I	E	R	G	N	N	L	K	E
Secondary structure
SS confidence
Disorder																																																								?	?	?	?	?	?
Disorder confidence
		.	.
Sequence		N	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 2o90 chain A Region: 1 - 115 Aligned: 115 Modelled: 115 Confidence: 100.0% Identity: 100% PDB header:lyase Chain: A: PDB Molecule:dihydroneopterin aldolase; PDBTitle: atomic resolution crystal structure of e.coli2 dihydroneopterin aldolase in complex with neopterin Phyre2 PDB 1sql chain N Region: 2 - 117 Aligned: 116 Modelled: 116 Confidence: 100.0% Identity: 34% PDB header:lyase Chain: N: PDB Molecule:dihydroneopterin aldolase; PDBTitle: crystal structure of 7,8-dihydroneopterin aldolase in2 complex with guanine Phyre2 PDB 1b9l chain A Region: 1 - 116 Aligned: 116 Modelled: 116 Confidence: 100.0% Identity: 24% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: DHN aldolase/epimerase Phyre2 PDB 1sql chain A Region: 2 - 116 Aligned: 115 Modelled: 115 Confidence: 100.0% Identity: 34% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: DHN aldolase/epimerase Phyre2 PDB 1nbu chain A Region: 2 - 116 Aligned: 115 Modelled: 115 Confidence: 100.0% Identity: 31% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: DHN aldolase/epimerase Phyre2 PDB 1dhn chain A Region: 1 - 117 Aligned: 117 Modelled: 117 Confidence: 100.0% Identity: 26% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: DHN aldolase/epimerase Phyre2 PDB 2cg8 chain B Region: 1 - 118 Aligned: 114 Modelled: 114 Confidence: 100.0% Identity: 23% PDB header:lyase/transferase Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8- PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae Phyre2 PDB 2iba chain A domain 1 Region: 28 - 97 Aligned: 70 Modelled: 70 Confidence: 94.9% Identity: 7% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: Urate oxidase (uricase) Phyre2 PDB 1j2g chain A domain 1 Region: 28 - 97 Aligned: 70 Modelled: 70 Confidence: 93.8% Identity: 11% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: Urate oxidase (uricase) Phyre2 PDB 2yzc chain A domain 1 Region: 28 - 97 Aligned: 69 Modelled: 70 Confidence: 93.8% Identity: 17% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: Urate oxidase (uricase) Phyre2 PDB 1r56 chain H Region: 28 - 97 Aligned: 70 Modelled: 70 Confidence: 92.7% Identity: 7% PDB header:oxidoreductase Chain: H: PDB Molecule:uricase; PDBTitle: uncomplexed urate oxidase from aspergillus flavus Phyre2 PDB 2yzb chain A Region: 28 - 97 Aligned: 69 Modelled: 70 Confidence: 92.0% Identity: 17% PDB header:oxidoreductase Chain: A: PDB Molecule:uricase; PDBTitle: crystal structure of uricase from arthrobacter globiformis2 in complex with uric acid (substrate) Phyre2 PDB 1j2g chain C Region: 28 - 97 Aligned: 70 Modelled: 70 Confidence: 90.1% Identity: 11% PDB header:oxidoreductase Chain: C: PDB Molecule:uricase; PDBTitle: crystal structure of urate oxidase from bacillus sp. tb-90 co-2 crystallized with 8-azaxanthine Phyre2 PDB 2a0s chain A domain 1 Region: 1 - 97 Aligned: 91 Modelled: 97 Confidence: 76.3% Identity: 15% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: 6-pyruvoyl tetrahydropterin synthase Phyre2 PDB 2r5r chain A Region: 1 - 97 Aligned: 84 Modelled: 95 Confidence: 69.9% Identity: 17% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0343 protein ne1163; PDBTitle: the crystal structure of duf198 from nitrosomonas europaea2 atcc 19718 Phyre2 PDB 1y13 chain A Region: 3 - 97 Aligned: 89 Modelled: 95 Confidence: 55.6% Identity: 18% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: 6-pyruvoyl tetrahydropterin synthase Phyre2 PDB 3d2o chain B Region: 1 - 97 Aligned: 83 Modelled: 93 Confidence: 53.5% Identity: 24% PDB header:hydrolase, biosynthetic protein Chain: B: PDB Molecule:upf0343 protein ngo0387; PDBTitle: crystal structure of manganese-metallated gtp cyclohydrolase2 type ib Phyre2 PDB 2dj6 chain B Region: 1 - 97 Aligned: 90 Modelled: 97 Confidence: 32.7% Identity: 12% PDB header:lyase Chain: B: PDB Molecule:hypothetical protein ph0634; PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3 Phyre2 PDB 1j2g chain A domain 2 Region: 29 - 96 Aligned: 68 Modelled: 68 Confidence: 25.6% Identity: 12% Fold: T-fold Superfamily: Tetrahydrobiopterin biosynthesis enzymes-like Family: Urate oxidase (uricase) Phyre2 PDB 1a6q chain A domain 2 Region: 44 - 103 Aligned: 58 Modelled: 60 Confidence: 21.7% Identity: 19% Fold: PP2C-like Superfamily: PP2C-like Family: PP2C-like Phyre2 1 c2o90A_ 2 c1sqlN_ 3 d1b9la_ 4 d1sqla_ 5 d1nbua_ 6 d1dhna_ 7 c2cg8B_ 8 d2ibaa1 9 d1j2ga1 10 d2yzca1 11 c1r56H_ 12 c2yzbA_ 13 c1j2gC_ 14 d2a0sa1 15 c2r5rA_ 16 d1y13a_ 17 c3d2oB_ 18 c2dj6B_ 19 d1j2ga2 20 d1a6qa2 21 22 23 24 25 26 27 28 29 30 31 32

Detailed template information

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

1 c2o90A_ 100.0 100 PDB header:lyase Chain: A: PDB Molecule:dihydroneopterin aldolase; PDBTitle: atomic resolution crystal structure of e.coli2 dihydroneopterin aldolase in complex with neopterin 2 c1sqlN_ 100.0 34 PDB header:lyase Chain: N: PDB Molecule:dihydroneopterin aldolase; PDBTitle: crystal structure of 7,8-dihydroneopterin aldolase in2 complex with guanine 3 d1b9la_ 100.0 24 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase 4 d1sqla_ 100.0 34 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase 5 d1nbua_ 100.0 31 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase 6 d1dhna_ 100.0 26 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:DHN aldolase/epimerase 7 c2cg8B_ 100.0 23 PDB header:lyase/transferase Chain: B: PDB Molecule:dihydroneopterin aldolase 6-hydroxymethyl-7,8- PDBTitle: the bifunctional dihydroneopterin aldolase 6-hydroxymethyl-2 7,8-dihydropterin synthase from streptococcus pneumoniae 8 d2ibaa1 94.9 7 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 9 d1j2ga1 93.8 11 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 10 d2yzca1 93.8 17 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 11 c1r56H_ 92.7 7 PDB header:oxidoreductase Chain: H: PDB Molecule:uricase; PDBTitle: uncomplexed urate oxidase from aspergillus flavus 12 c2yzbA_ 92.0 17 PDB header:oxidoreductase Chain: A: PDB Molecule:uricase; PDBTitle: crystal structure of uricase from arthrobacter globiformis2 in complex with uric acid (substrate) 13 c1j2gC_ 90.1 11 PDB header:oxidoreductase Chain: C: PDB Molecule:uricase; PDBTitle: crystal structure of urate oxidase from bacillus sp. tb-90 co-2 crystallized with 8-azaxanthine 14 d2a0sa1 76.3 15 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase 15 c2r5rA_ 69.9 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:upf0343 protein ne1163; PDBTitle: the crystal structure of duf198 from nitrosomonas europaea2 atcc 19718 16 d1y13a_ 55.6 18 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:6-pyruvoyl tetrahydropterin synthase 17 c3d2oB_ 53.5 24 PDB header:hydrolase, biosynthetic protein Chain: B: PDB Molecule:upf0343 protein ngo0387; PDBTitle: crystal structure of manganese-metallated gtp cyclohydrolase2 type ib 18 c2dj6B_ 32.7 12 PDB header:lyase Chain: B: PDB Molecule:hypothetical protein ph0634; PDBTitle: crystal structure of 6-pyruvoyl tetrahydrobiopterin synthase from2 pyrococcus horikoshii ot3 19 d1j2ga2 25.6 12 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 20 d1a6qa2 21.7 19 Fold:PP2C-like Superfamily:PP2C-like Family:PP2C-like 21 c3gdzA_ not modelled 15.6 11 PDB header:ligase Chain: A: PDB Molecule:arginyl-trna synthetase; PDBTitle: crystal structure of arginyl-trna synthetase from klebsiella2 pneumoniae subsp. pneumoniae 22 c2i44A_ not modelled 13.8 16 PDB header:hydrolase Chain: A: PDB Molecule:serine-threonine phosphatase 2c; PDBTitle: crystal structure of serine-threonine phosphatase 2c from2 toxoplasma gondii 23 d1ghha_ not modelled 10.6 21 Fold:DNA damage-inducible protein DinI Superfamily:DNA damage-inducible protein DinI Family:DNA damage-inducible protein DinI 24 d1a04a2 not modelled 9.8 16 Fold:Flavodoxin-like Superfamily:CheY-like Family:CheY-related 25 d2yzca2 not modelled 9.2 9 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 26 d1wura1 not modelled 8.3 20 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I 27 c1wm9D_ not modelled 8.3 20 PDB header:hydrolase Chain: D: PDB Molecule:gtp cyclohydrolase i; PDBTitle: structure of gtp cyclohydrolase i from thermus thermophilus hb8 28 d1wpla_ not modelled 7.6 13 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I 29 c1is7F_ not modelled 7.6 13 PDB header:hydrolase/protein binding Chain: F: PDB Molecule:gtp cyclohydrolase i; PDBTitle: crystal structure of rat gtpchi/gfrp stimulatory complex 30 d2ibaa2 not modelled 7.5 25 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:Urate oxidase (uricase) 31 d1a8ra_ not modelled 6.9 15 Fold:T-fold Superfamily:Tetrahydrobiopterin biosynthesis enzymes-like Family:GTP cyclohydrolase I 32 c2zw2B_ not modelled 6.7 12 PDB header:ligase Chain: B: PDB Molecule:putative uncharacterized protein sts178; PDBTitle: crystal structure of formylglycinamide ribonucleotide amidotransferase2 iii from sulfolobus tokodaii (stpurs)

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

---

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