Secondary structure and disorder prediction

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10

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20

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30

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40

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50

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60

Sequence

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Secondary structure

SS confidence

Disorder

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Disorder confidence

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70

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80

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90

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100

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110

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120

Sequence

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A

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D

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F

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C

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Secondary structure

SS confidence

Disorder

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Disorder confidence

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130

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140

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150

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160

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170

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180

Sequence

R

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C

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M

K

A

G

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C

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H

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Secondary structure

SS confidence

Disorder

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Disorder confidence

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Sequence

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Secondary structure

SS confidence

Disorder

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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 1dvo chain A Region: 33 - 184 Aligned: 152 Modelled: 152 Confidence: 100.0% Identity: 97% Fold: FinO-like Superfamily: FinO-like Family: FinO-like Phyre2 PDB 2hxj chain A domain 1 Region: 63 - 165 Aligned: 99 Modelled: 103 Confidence: 100.0% Identity: 23% Fold: FinO-like Superfamily: FinO-like Family: FinO-like Phyre2 PDB 2hxj chain F Region: 62 - 165 Aligned: 100 Modelled: 104 Confidence: 100.0% Identity: 23% PDB header:structural genomics, unknown function Chain: F: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a protein of unknown function nmb1681 from2 neisseria meningitidis mc58, possible nucleic acid binding protein Phyre2 PDB 2k19 chain A Region: 88 - 127 Aligned: 37 Modelled: 40 Confidence: 53.1% Identity: 30% PDB header:antimicrobial protein Chain: A: PDB Molecule:putative piscicolin 126 immunity protein; PDBTitle: nmr solution structure of pisi Phyre2 PDB 2zrr chain A Region: 97 - 127 Aligned: 28 Modelled: 31 Confidence: 37.4% Identity: 36% PDB header:antimicrobial protein Chain: A: PDB Molecule:mundticin ks immunity protein; PDBTitle: crystal structure of an immunity protein that contributes2 to the self-protection of bacteriocin-producing3 enterococcus mundtii 15-1a Phyre2 PDB 2jdq chain D domain 1 Region: 4 - 22 Aligned: 19 Modelled: 19 Confidence: 26.1% Identity: 37% Fold: PB2 C-terminal domain-like Superfamily: PB2 C-terminal domain-like Family: PB2 C-terminal domain-like Phyre2 PDB 2yic chain C Region: 68 - 148 Aligned: 81 Modelled: 81 Confidence: 21.3% Identity: 17% PDB header:lyase Chain: C: PDB Molecule:2-oxoglutarate decarboxylase; PDBTitle: crystal structure of the suca domain of mycobacterium smegmatis2 alpha-ketoglutarate decarboxylase (triclinic form) Phyre2 PDB 2i5u chain A domain 1 Region: 86 - 137 Aligned: 52 Modelled: 52 Confidence: 14.1% Identity: 15% Fold: DnaD domain-like Superfamily: DnaD domain-like Family: DnaD domain Phyre2 PDB 2w50 chain B Region: 96 - 130 Aligned: 35 Modelled: 35 Confidence: 13.4% Identity: 9% PDB header:hormone Chain: B: PDB Molecule:armet-like protein 1; PDBTitle: n-terminal domain of human conserved dopamine neurotrophic2 factor (cdnf) Phyre2 PDB 2xt6 chain B Region: 72 - 148 Aligned: 77 Modelled: 77 Confidence: 12.4% Identity: 17% PDB header:lyase Chain: B: PDB Molecule:2-oxoglutarate decarboxylase; PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form) Phyre2 PDB 2w51 chain A Region: 96 - 130 Aligned: 35 Modelled: 35 Confidence: 12.4% Identity: 14% PDB header:hormone Chain: A: PDB Molecule:protein armet; PDBTitle: human mesencephalic astrocyte-derived neurotrophic factor (2 manf) Phyre2 PDB 3pp5 chain A Region: 97 - 137 Aligned: 41 Modelled: 41 Confidence: 12.3% Identity: 12% PDB header:structural protein Chain: A: PDB Molecule:brk1; PDBTitle: high-resolution structure of the trimeric scar/wave complex precursor2 brk1 Phyre2 PDB 1b33 chain A Region: 73 - 140 Aligned: 48 Modelled: 48 Confidence: 12.1% Identity: 17% Fold: Globin-like Superfamily: Globin-like Family: Phycocyanin-like phycobilisome proteins Phyre2 PDB 3mix chain A Region: 74 - 130 Aligned: 57 Modelled: 57 Confidence: 12.1% Identity: 18% PDB header:protein transport Chain: A: PDB Molecule:flagellar biosynthesis protein flha; PDBTitle: crystal structure of the cytosolic domain of b. subtilis flha Phyre2 PDB 3a5i chain B Region: 74 - 115 Aligned: 42 Modelled: 42 Confidence: 11.2% Identity: 12% PDB header:protein transport Chain: B: PDB Molecule:flagellar biosynthesis protein flha; PDBTitle: structure of the cytoplasmic domain of flha Phyre2 PDB 2kq6 chain A Region: 103 - 170 Aligned: 63 Modelled: 68 Confidence: 11.1% Identity: 25% PDB header:transport protein Chain: A: PDB Molecule:polycystin-2; PDBTitle: the structure of the ef-hand domain of polycystin-2 suggests a2 mechanism for ca2+-dependent regulation of polycystin-2 channel3 activity Phyre2 PDB 1all chain A Region: 73 - 140 Aligned: 48 Modelled: 48 Confidence: 11.0% Identity: 17% Fold: Globin-like Superfamily: Globin-like Family: Phycocyanin-like phycobilisome proteins Phyre2 PDB 1us2 chain A Region: 84 - 105 Aligned: 22 Modelled: 22 Confidence: 10.9% Identity: 36% PDB header:hydrolase Chain: A: PDB Molecule:endo-beta-1,4-xylanase; PDBTitle: xylanase10c (mutant e385a) from cellvibrio japonicus in2 complex with xylopentaose Phyre2 PDB 1qnt chain A domain 2 Region: 72 - 84 Aligned: 13 Modelled: 13 Confidence: 10.7% Identity: 15% Fold: Ribonuclease H-like motif Superfamily: Methylated DNA-protein cysteine methyltransferase domain Family: Methylated DNA-protein cysteine methyltransferase domain Phyre2 PDB 1v4v chain A Region: 98 - 157 Aligned: 59 Modelled: 60 Confidence: 10.7% Identity: 12% Fold: UDP-Glycosyltransferase/glycogen phosphorylase Superfamily: UDP-Glycosyltransferase/glycogen phosphorylase Family: UDP-N-acetylglucosamine 2-epimerase Phyre2 1 d1dvoa_ 2 d2hxja1 3 c2hxjF_ 4 c2k19A_ 5 c2zrrA_ 6 d2jdqd1 7 c2yicC_ 8 d2i5ua1 9 c2w50B_ 10 c2xt6B_ 11 c2w51A_ 12 c3pp5A_ 13 d1b33a_ 14 c3mixA_ 15 c3a5iB_ 16 c2kq6A_ 17 d1alla_ 18 c1us2A_ 19 d1qnta2 20 d1v4va_ 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

Detailed template information

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

1 d1dvoa_ 100.0 97 Fold:FinO-like Superfamily:FinO-like Family:FinO-like 2 d2hxja1 100.0 23 Fold:FinO-like Superfamily:FinO-like Family:FinO-like 3 c2hxjF_ 100.0 23 PDB header:structural genomics, unknown function Chain: F: PDB Molecule:hypothetical protein; PDBTitle: crystal structure of a protein of unknown function nmb1681 from2 neisseria meningitidis mc58, possible nucleic acid binding protein 4 c2k19A_ 53.1 30 PDB header:antimicrobial protein Chain: A: PDB Molecule:putative piscicolin 126 immunity protein; PDBTitle: nmr solution structure of pisi 5 c2zrrA_ 37.4 36 PDB header:antimicrobial protein Chain: A: PDB Molecule:mundticin ks immunity protein; PDBTitle: crystal structure of an immunity protein that contributes2 to the self-protection of bacteriocin-producing3 enterococcus mundtii 15-1a 6 d2jdqd1 26.1 37 Fold:PB2 C-terminal domain-like Superfamily:PB2 C-terminal domain-like Family:PB2 C-terminal domain-like 7 c2yicC_ 21.3 17 PDB header:lyase Chain: C: PDB Molecule:2-oxoglutarate decarboxylase; PDBTitle: crystal structure of the suca domain of mycobacterium smegmatis2 alpha-ketoglutarate decarboxylase (triclinic form) 8 d2i5ua1 14.1 15 Fold:DnaD domain-like Superfamily:DnaD domain-like Family:DnaD domain 9 c2w50B_ 13.4 9 PDB header:hormone Chain: B: PDB Molecule:armet-like protein 1; PDBTitle: n-terminal domain of human conserved dopamine neurotrophic2 factor (cdnf) 10 c2xt6B_ 12.4 17 PDB header:lyase Chain: B: PDB Molecule:2-oxoglutarate decarboxylase; PDBTitle: crystal structure of mycobacterium smegmatis alpha-ketoglutarate2 decarboxylase homodimer (orthorhombic form) 11 c2w51A_ 12.4 14 PDB header:hormone Chain: A: PDB Molecule:protein armet; PDBTitle: human mesencephalic astrocyte-derived neurotrophic factor (2 manf) 12 c3pp5A_ 12.3 12 PDB header:structural protein Chain: A: PDB Molecule:brk1; PDBTitle: high-resolution structure of the trimeric scar/wave complex precursor2 brk1 13 d1b33a_ 12.1 17 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 14 c3mixA_ 12.1 18 PDB header:protein transport Chain: A: PDB Molecule:flagellar biosynthesis protein flha; PDBTitle: crystal structure of the cytosolic domain of b. subtilis flha 15 c3a5iB_ 11.2 12 PDB header:protein transport Chain: B: PDB Molecule:flagellar biosynthesis protein flha; PDBTitle: structure of the cytoplasmic domain of flha 16 c2kq6A_ 11.1 25 PDB header:transport protein Chain: A: PDB Molecule:polycystin-2; PDBTitle: the structure of the ef-hand domain of polycystin-2 suggests a2 mechanism for ca2+-dependent regulation of polycystin-2 channel3 activity 17 d1alla_ 11.0 17 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 18 c1us2A_ 10.9 36 PDB header:hydrolase Chain: A: PDB Molecule:endo-beta-1,4-xylanase; PDBTitle: xylanase10c (mutant e385a) from cellvibrio japonicus in2 complex with xylopentaose 19 d1qnta2 10.7 15 Fold:Ribonuclease H-like motif Superfamily:Methylated DNA-protein cysteine methyltransferase domain Family:Methylated DNA-protein cysteine methyltransferase domain 20 d1v4va_ 10.7 12 Fold:UDP-Glycosyltransferase/glycogen phosphorylase Superfamily:UDP-Glycosyltransferase/glycogen phosphorylase Family:UDP-N-acetylglucosamine 2-epimerase 21 c3dv9A_ not modelled 9.7 19 PDB header:isomerase Chain: A: PDB Molecule:beta-phosphoglucomutase; PDBTitle: putative beta-phosphoglucomutase from bacteroides vulgatus. 22 d1qh8b_ not modelled 9.6 15 Fold:Chelatase-like Superfamily:"Helical backbone" metal receptor Family:Nitrogenase iron-molybdenum protein 23 d1kn1a_ not modelled 9.4 15 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 24 d1cpcb_ not modelled 9.1 23 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 25 c3aicC_ not modelled 8.9 24 PDB header:transferase Chain: C: PDB Molecule:glucosyltransferase-si; PDBTitle: crystal structure of glucansucrase from streptococcus mutans 26 d1gjja2 not modelled 8.9 29 Fold:LEM/SAP HeH motif Superfamily:LEM domain Family:LEM domain 27 d1xg0c_ not modelled 8.8 21 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 28 c3mydA_ not modelled 8.4 15 PDB header:protein transport Chain: A: PDB Molecule:flagellar biosynthesis protein flha; PDBTitle: structure of the cytoplasmic domain of flha from helicobacter pylori 29 d1ka8a_ not modelled 7.9 15 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:P4 origin-binding domain-like 30 c3hz3A_ not modelled 7.6 35 PDB header:transferase Chain: A: PDB Molecule:glucansucrase; PDBTitle: lactobacillus reuteri n-terminally truncated glucansucrase2 gtf180(d1025n)-sucrose complex 31 c4ktqA_ not modelled 7.2 25 PDB header:transferase/dna Chain: A: PDB Molecule:protein (large fragment of dna polymerase i); PDBTitle: binary complex of the large fragment of dna polymerase i2 from t. aquaticus bound to a primer/template dna 32 d1s9aa_ not modelled 6.8 3 Fold:Prealbumin-like Superfamily:Aromatic compound dioxygenase Family:Aromatic compound dioxygenase 33 c3hj8A_ not modelled 6.8 10 PDB header:oxidoreductase Chain: A: PDB Molecule:catechol 1,2-dioxygenase; PDBTitle: crystal structure determination of catechol 1,2-dioxygenase from2 rhodococcus opacus 1cp in complex with 4-chlorocatechol 34 c3s2xB_ not modelled 6.7 12 PDB header:transferase Chain: B: PDB Molecule:acetyl-coa synthase subunit alpha; PDBTitle: structure of acetyl-coenzyme a synthase alpha subunit c-terminal2 domain 35 c1tmxA_ not modelled 6.5 13 PDB header:oxidoreductase Chain: A: PDB Molecule:hydroxyquinol 1,2-dioxygenase; PDBTitle: crystal structure of hydroxyquinol 1,2-dioxygenase from2 nocardioides simplex 3e 36 c2boyC_ not modelled 6.4 7 PDB header:oxidoreductase Chain: C: PDB Molecule:3-chlorocatechol 1,2-dioxygenase; PDBTitle: crystal structure of 3-chlorocatechol 1,2-dioxygenase from2 rhodococcus opacus 1cp 37 c2c7jB_ not modelled 6.4 21 PDB header:electron transport Chain: B: PDB Molecule:phycoerythrocyanin beta chain; PDBTitle: phycoerythrocyanin from mastigocladus laminosus, 295 k,2 3.0 a 38 d1dmha_ not modelled 6.4 10 Fold:Prealbumin-like Superfamily:Aromatic compound dioxygenase Family:Aromatic compound dioxygenase 39 c2azqA_ not modelled 6.1 20 PDB header:oxidoreductase Chain: A: PDB Molecule:catechol 1,2-dioxygenase; PDBTitle: crystal structure of catechol 1,2-dioxygenase from pseudomonas arvilla2 c-1 40 d2c7fa2 not modelled 6.0 25 Fold:TIM beta/alpha-barrel Superfamily:(Trans)glycosidases Family:beta-glycanases 41 d2b1xa1 not modelled 6.0 17 Fold:ISP domain Superfamily:ISP domain Family:Ring hydroxylating alpha subunit ISP domain 42 d2ijqa1 not modelled 5.9 11 Fold:Hyaluronidase domain-like Superfamily:TTHA0068-like Family:TTHA0068-like 43 c2kpqA_ not modelled 5.9 21 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: nmr structure of agrobacterium tumefaciens protein atu1219:2 northeast structural genomics consortium target att14 44 c2zc2A_ not modelled 5.5 22 PDB header:replication Chain: A: PDB Molecule:dnad-like replication protein; PDBTitle: crystal structure of dnad-like replication protein from2 streptococcus mutans ua159, gi 24377835, residues 127-199 45 c2vmlA_ not modelled 5.5 17 PDB header:photosynthesis Chain: A: PDB Molecule:phycocyanin alpha chain; PDBTitle: the monoclinic structure of phycocyanin from gloeobacter2 violaceus 46 d1ezfa_ not modelled 5.5 26 Fold:Terpenoid synthases Superfamily:Terpenoid synthases Family:Squalene synthase 47 d1liab_ not modelled 5.4 23 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins 48 d2ghra1 not modelled 5.2 33 Fold:Flavodoxin-like Superfamily:Class I glutamine amidotransferase-like Family:HTS-like 49 d1b8da_ not modelled 5.2 15 Fold:Globin-like Superfamily:Globin-like Family:Phycocyanin-like phycobilisome proteins

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