Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	L	D	L	F	A	D	A	E	P	W	Q	E	P	L	A	A	G	A	V	I	L	R	R	F	A	F	N	A	A	E	Q	L	I	R	D	I	N	D	V	A	S	Q	S	P	F	R	Q	M	V	T	P	G	G	Y	T	M	S	V	A
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?		?	?	?	?																																		?		?	?	?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		M	T	N	C	G	H	L	G	W	T	T	H	R	Q	G	Y	L	Y	S	P	I	D	P	Q	T	N	K	P	W	P	A	M	P	Q	S	F	H	N	L	C	Q	R	A	A	T	A	A	G	Y	P	D	F	Q	P	D	A	C	L	I	N
Secondary structure
SS confidence
Disorder		?																		?	?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		R	Y	A	P	G	A	K	L	S	L	H	Q	D	K	D	E	P	D	L	R	A	P	I	V	S	V	S	L	G	L	P	A	I	F	Q	F	G	G	L	K	R	N	D	P	L	K	R	L	L	L	E	H	G	D	V	V	V	W	G	G
Secondary structure
SS confidence
Disorder							?																																			?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.
Sequence		E	S	R	L	F	Y	H	G	I	Q	P	L	K	A	G	F	H	P	L	T	I	D	C	R	Y	N	L	T	F	R	Q	A	G	K	K	E
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 2fdi chain A domain 1 Region: 15 - 213 Aligned: 198 Modelled: 199 Confidence: 100.0% Identity: 100% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: AlkB-like Phyre2 PDB 3tht chain B Region: 6 - 216 Aligned: 177 Modelled: 184 Confidence: 100.0% Identity: 24% PDB header:oxidoreductase Chain: B: PDB Molecule:alkylated dna repair protein alkb homolog 8; PDBTitle: crystal structure and rna binding properties of the rrm/alkb domains2 in human abh8, an enzyme catalyzing trna hypermodification, northeast3 structural genomics consortium target hr5601b Phyre2 PDB 2iuw chain A domain 1 Region: 17 - 212 Aligned: 178 Modelled: 191 Confidence: 100.0% Identity: 20% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: AlkB-like Phyre2 PDB 2iuw chain A Region: 17 - 212 Aligned: 178 Modelled: 196 Confidence: 100.0% Identity: 20% PDB header:oxidoreductase Chain: A: PDB Molecule:alkylated repair protein alkb homolog 3; PDBTitle: crystal structure of human abh3 in complex with iron ion2 and 2-oxoglutarate Phyre2 PDB 3btz chain A Region: 11 - 212 Aligned: 188 Modelled: 202 Confidence: 100.0% Identity: 22% PDB header:oxidoreductase/dna Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 2; PDBTitle: crystal structure of human abh2 cross-linked to dsdna Phyre2 PDB 3dkq chain B Region: 15 - 209 Aligned: 147 Modelled: 164 Confidence: 98.5% Identity: 19% PDB header:oxidoreductase Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634; PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution Phyre2 PDB 2g19 chain A Region: 18 - 208 Aligned: 174 Modelled: 191 Confidence: 98.4% Identity: 14% PDB header:oxidoreductase Chain: A: PDB Molecule:egl nine homolog 1; PDBTitle: cellular oxygen sensing: crystal structure of hypoxia-2 inducible factor prolyl hydroxylase (phd2) Phyre2 PDB 3itq chain B Region: 17 - 215 Aligned: 157 Modelled: 164 Confidence: 97.9% Identity: 14% PDB header:oxidoreductase Chain: B: PDB Molecule:prolyl 4-hydroxylase, alpha subunit domain protein; PDBTitle: crystal structure of a prolyl 4-hydroxylase from bacillus anthracis Phyre2 PDB 3oui chain A Region: 18 - 208 Aligned: 155 Modelled: 168 Confidence: 97.9% Identity: 17% PDB header:oxidoreductase Chain: A: PDB Molecule:egl nine homolog 1; PDBTitle: phd2-r717 with 40787422 Phyre2 PDB 2jij chain A Region: 15 - 208 Aligned: 151 Modelled: 158 Confidence: 97.9% Identity: 19% PDB header:hydrolase Chain: A: PDB Molecule:prolyl-4 hydroxylase; PDBTitle: crystal structure of the apo form of chlamydomonas2 reinhardtii prolyl-4 hydroxylase type i Phyre2 PDB 3lfm chain A Region: 113 - 216 Aligned: 95 Modelled: 104 Confidence: 96.7% Identity: 23% PDB header:oxidoreductase Chain: A: PDB Molecule:protein fto; PDBTitle: crystal structure of the fat mass and obesity associated (fto) protein2 reveals basis for its substrate specificity Phyre2 PDB 3gjb chain A Region: 18 - 210 Aligned: 160 Modelled: 168 Confidence: 95.8% Identity: 14% PDB header:biosynthetic protein Chain: A: PDB Molecule:cytc3; PDBTitle: cytc3 with fe(ii) and alpha-ketoglutarate Phyre2 PDB 2a1x chain A domain 1 Region: 18 - 210 Aligned: 163 Modelled: 174 Confidence: 92.8% Identity: 18% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: PhyH-like Phyre2 PDB 2opw chain A Region: 18 - 210 Aligned: 184 Modelled: 192 Confidence: 92.2% Identity: 15% PDB header:oxidoreductase Chain: A: PDB Molecule:phyhd1 protein; PDBTitle: crystal structure of human phytanoyl-coa dioxygenase phyhd1 (apo) Phyre2 PDB 2rds chain A Region: 18 - 216 Aligned: 177 Modelled: 183 Confidence: 92.1% Identity: 13% PDB header:oxidoreductase Chain: A: PDB Molecule:1-deoxypentalenic acid 11-beta hydroxylase; fe(ii)/alpha- PDBTitle: crystal structure of ptlh with fe/oxalylglycine and ent-1-2 deoxypentalenic acid bound Phyre2 PDB 3emr chain A Region: 18 - 213 Aligned: 166 Modelled: 175 Confidence: 89.6% Identity: 18% PDB header:oxidoreductase Chain: A: PDB Molecule:ectd; PDBTitle: crystal structure analysis of the ectoine hydroxylase ectd from2 salibacillus salexigens Phyre2 PDB 2fct chain A domain 1 Region: 18 - 212 Aligned: 166 Modelled: 173 Confidence: 88.9% Identity: 16% Fold: Double-stranded beta-helix Superfamily: Clavaminate synthase-like Family: PhyH-like Phyre2 PDB 3nnl chain B Region: 18 - 210 Aligned: 144 Modelled: 151 Confidence: 88.7% Identity: 15% PDB header:biosynthetic protein Chain: B: PDB Molecule:cura; PDBTitle: halogenase domain from cura module (crystal form iii) Phyre2 PDB 3kt4 chain A Region: 18 - 208 Aligned: 159 Modelled: 168 Confidence: 83.9% Identity: 16% PDB header:oxidoreductase Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1; PDBTitle: crystal structure of tpa1 from saccharomyces cerevisiae, a2 component of the messenger ribonucleoprotein complex Phyre2 PDB 3pl0 chain B Region: 129 - 213 Aligned: 81 Modelled: 81 Confidence: 79.6% Identity: 20% PDB header:biosynthetic protein Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a bsma homolog (mpe_a2762) from methylobium2 petroleophilum pm1 at 1.91 a resolution Phyre2 1 d2fdia1 2 c3thtB_ 3 d2iuwa1 4 c2iuwA_ 5 c3btzA_ 6 c3dkqB_ 7 c2g19A_ 8 c3itqB_ 9 c3ouiA_ 10 c2jijA_ 11 c3lfmA_ 12 c3gjbA_ 13 d2a1xa1 14 c2opwA_ 15 c2rdsA_ 16 c3emrA_ 17 d2fcta1 18 c3nnlB_ 19 c3kt4A_ 20 c3pl0B_ 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 46 47 48 49 50 51

Detailed template information

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

1 d2fdia1 100.0 100 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:AlkB-like 2 c3thtB_ 100.0 24 PDB header:oxidoreductase Chain: B: PDB Molecule:alkylated dna repair protein alkb homolog 8; PDBTitle: crystal structure and rna binding properties of the rrm/alkb domains2 in human abh8, an enzyme catalyzing trna hypermodification, northeast3 structural genomics consortium target hr5601b 3 d2iuwa1 100.0 20 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:AlkB-like 4 c2iuwA_ 100.0 20 PDB header:oxidoreductase Chain: A: PDB Molecule:alkylated repair protein alkb homolog 3; PDBTitle: crystal structure of human abh3 in complex with iron ion2 and 2-oxoglutarate 5 c3btzA_ 100.0 22 PDB header:oxidoreductase/dna Chain: A: PDB Molecule:alpha-ketoglutarate-dependent dioxygenase alkb homolog 2; PDBTitle: crystal structure of human abh2 cross-linked to dsdna 6 c3dkqB_ 98.5 19 PDB header:oxidoreductase Chain: B: PDB Molecule:pkhd-type hydroxylase sbal_3634; PDBTitle: crystal structure of putative oxygenase (yp_001051978.1) from2 shewanella baltica os155 at 2.26 a resolution 7 c2g19A_ 98.4 14 PDB header:oxidoreductase Chain: A: PDB Molecule:egl nine homolog 1; PDBTitle: cellular oxygen sensing: crystal structure of hypoxia-2 inducible factor prolyl hydroxylase (phd2) 8 c3itqB_ 97.9 14 PDB header:oxidoreductase Chain: B: PDB Molecule:prolyl 4-hydroxylase, alpha subunit domain protein; PDBTitle: crystal structure of a prolyl 4-hydroxylase from bacillus anthracis 9 c3ouiA_ 97.9 17 PDB header:oxidoreductase Chain: A: PDB Molecule:egl nine homolog 1; PDBTitle: phd2-r717 with 40787422 10 c2jijA_ 97.9 19 PDB header:hydrolase Chain: A: PDB Molecule:prolyl-4 hydroxylase; PDBTitle: crystal structure of the apo form of chlamydomonas2 reinhardtii prolyl-4 hydroxylase type i 11 c3lfmA_ 96.7 23 PDB header:oxidoreductase Chain: A: PDB Molecule:protein fto; PDBTitle: crystal structure of the fat mass and obesity associated (fto) protein2 reveals basis for its substrate specificity 12 c3gjbA_ 95.8 14 PDB header:biosynthetic protein Chain: A: PDB Molecule:cytc3; PDBTitle: cytc3 with fe(ii) and alpha-ketoglutarate 13 d2a1xa1 92.8 18 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:PhyH-like 14 c2opwA_ 92.2 15 PDB header:oxidoreductase Chain: A: PDB Molecule:phyhd1 protein; PDBTitle: crystal structure of human phytanoyl-coa dioxygenase phyhd1 (apo) 15 c2rdsA_ 92.1 13 PDB header:oxidoreductase Chain: A: PDB Molecule:1-deoxypentalenic acid 11-beta hydroxylase; fe(ii)/alpha- PDBTitle: crystal structure of ptlh with fe/oxalylglycine and ent-1-2 deoxypentalenic acid bound 16 c3emrA_ 89.6 18 PDB header:oxidoreductase Chain: A: PDB Molecule:ectd; PDBTitle: crystal structure analysis of the ectoine hydroxylase ectd from2 salibacillus salexigens 17 d2fcta1 88.9 16 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:PhyH-like 18 c3nnlB_ 88.7 15 PDB header:biosynthetic protein Chain: B: PDB Molecule:cura; PDBTitle: halogenase domain from cura module (crystal form iii) 19 c3kt4A_ 83.9 16 PDB header:oxidoreductase Chain: A: PDB Molecule:pkhd-type hydroxylase tpa1; PDBTitle: crystal structure of tpa1 from saccharomyces cerevisiae, a2 component of the messenger ribonucleoprotein complex 20 c3pl0B_ 79.6 20 PDB header:biosynthetic protein Chain: B: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a bsma homolog (mpe_a2762) from methylobium2 petroleophilum pm1 at 1.91 a resolution 21 d1w9ya1 not modelled 78.6 17 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Penicillin synthase-like 22 d1vrba1 not modelled 75.4 15 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Asparaginyl hydroxylase-like 23 d1dcsa_ not modelled 74.7 16 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Penicillin synthase-like 24 c3bvcA_ not modelled 65.9 17 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein ism_01780; PDBTitle: crystal structure of uncharacterized protein ism_01780 from2 roseovarius nubinhibens ism 25 d1vr3a1 not modelled 38.9 17 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Acireductone dioxygenase 26 c3ooxA_ not modelled 35.0 17 PDB header:oxidoreductase Chain: A: PDB Molecule:putative 2og-fe(ii) oxygenase family protein; PDBTitle: crystal structure of a putative 2og-fe(ii) oxygenase family protein2 (cc_0200) from caulobacter crescentus at 1.44 a resolution 27 d1gp6a_ not modelled 32.2 15 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Penicillin synthase-like 28 c3on7C_ not modelled 23.6 18 PDB header:oxidoreductase Chain: C: PDB Molecule:oxidoreductase, iron/ascorbate family; PDBTitle: crystal structure of a putative oxygenase (so_2589) from shewanella2 oneidensis at 2.20 a resolution 29 d1odma_ not modelled 16.1 18 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Penicillin synthase-like 30 c2q30C_ not modelled 13.3 17 PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a rmlc-like cupin protein (dde_2303) from2 desulfovibrio desulfuricans subsp. at 1.94 a resolution 31 d1htwa_ not modelled 13.3 23 Fold:P-loop containing nucleoside triphosphate hydrolases Superfamily:P-loop containing nucleoside triphosphate hydrolases Family:YjeE-like 32 d2oqea1 not modelled 13.0 25 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 33 c3uyjA_ not modelled 12.8 19 PDB header:oxidoreductase Chain: A: PDB Molecule:lysine-specific demethylase 8; PDBTitle: crystal structure of jmjd5 catalytic core domain in complex with2 nickle and alpha-kg 34 c3al6A_ not modelled 12.7 20 PDB header:unknown function Chain: A: PDB Molecule:jmjc domain-containing protein c2orf60; PDBTitle: crystal structure of human tyw5 35 c2uvpB_ not modelled 12.5 30 PDB header:unknown function Chain: B: PDB Molecule:hoba; PDBTitle: crystal structure of hoba (hp1230)from helicobacter pylori 36 c2rohA_ not modelled 10.6 12 PDB header:dna binding protein Chain: A: PDB Molecule:telomere binding protein-1; PDBTitle: the dna binding domain of rtbp1 37 d1h2ka_ not modelled 9.0 25 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Hypoxia-inducible factor HIF ihhibitor (FIH1) 38 d1e5ra_ not modelled 8.4 7 Fold:Double-stranded beta-helix Superfamily:Clavaminate synthase-like Family:Type II Proline 3-hydroxylase (proline oxidase) 39 c1ljzB_ not modelled 8.1 33 PDB header:receptor, toxin Chain: B: PDB Molecule:acetylcholine receptor protein; PDBTitle: nmr structure of an achr-peptide (torpedo californica,2 alpha-subunit residues 182-202) in complex with alpha-3 bungarotoxin 40 d1sroa_ not modelled 7.6 27 Fold:OB-fold Superfamily:Nucleic acid-binding proteins Family:Cold shock DNA-binding domain-like 41 d1w6ga1 not modelled 7.6 13 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 42 d1w2za1 not modelled 6.8 14 Fold:Supersandwich Superfamily:Amine oxidase catalytic domain Family:Amine oxidase catalytic domain 43 d1u1sa1 not modelled 6.7 14 Fold:Sm-like fold Superfamily:Sm-like ribonucleoproteins Family:Pleiotropic translational regulator Hfq 44 d1zrra1 not modelled 6.7 17 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:Acireductone dioxygenase 45 d2ckxa1 not modelled 6.5 13 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Myb/SANT domain 46 d1zvfa1 not modelled 6.5 11 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:3-hydroxyanthranilic acid dioxygenase-like 47 d1yfua1 not modelled 6.5 21 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:3-hydroxyanthranilic acid dioxygenase-like 48 d1hk9a_ not modelled 5.7 14 Fold:Sm-like fold Superfamily:Sm-like ribonucleoproteins Family:Pleiotropic translational regulator Hfq 49 d1slqa_ not modelled 5.6 19 Fold:VP4 membrane interaction domain Superfamily:VP4 membrane interaction domain Family:VP4 membrane interaction domain 50 d1ud9a2 not modelled 5.4 17 Fold:DNA clamp Superfamily:DNA clamp Family:DNA polymerase processivity factor 51 d1sfna_ not modelled 5.3 15 Fold:Double-stranded beta-helix Superfamily:RmlC-like cupins Family:YlbA-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