Secondary structure and disorder prediction

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Sequence

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C

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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 2rfp chain A Region: 22 - 31 Aligned: 10 Modelled: 9 Confidence: 30.4% Identity: 30% PDB header:hydrolase Chain: A: PDB Molecule:putative ntp pyrophosphohydrolase; PDBTitle: crystal structure of putative ntp pyrophosphohydrolase2 (yp_001813558.1) from exiguobacterium sibiricum 255-15 at 1.74 a3 resolution Phyre2 PDB 1gpi chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 19.9% Identity: 60% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 2v3i chain A domain 1 Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 19.3% Identity: 70% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 1q9h chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 19.0% Identity: 70% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 2rfy chain B Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 17.8% Identity: 50% PDB header:hydrolase Chain: B: PDB Molecule:cellulose 1,4-beta-cellobiosidase; PDBTitle: crystal structure of cellobiohydrolase from melanocarpus2 albomyces complexed with cellobiose Phyre2 PDB 1ojj chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 16.5% Identity: 40% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 3ovw chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 14.6% Identity: 50% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 1eg1 chain A Region: 19 - 28 Aligned: 10 Modelled: 10 Confidence: 14.0% Identity: 50% Fold: Concanavalin A-like lectins/glucanases Superfamily: Concanavalin A-like lectins/glucanases Family: Glycosyl hydrolase family 7 catalytic core Phyre2 PDB 2j88 chain H domain 1 Region: 16 - 29 Aligned: 12 Modelled: 14 Confidence: 13.8% Identity: 67% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: C1 set domains (antibody constant domain-like) Phyre2 PDB 1v54 chain J Region: 1 - 20 Aligned: 20 Modelled: 20 Confidence: 13.4% Identity: 20% Fold: Single transmembrane helix Superfamily: Mitochondrial cytochrome c oxidase subunit VIIa Family: Mitochondrial cytochrome c oxidase subunit VIIa Phyre2 PDB 2a7o chain A Region: 23 - 33 Aligned: 11 Modelled: 11 Confidence: 11.8% Identity: 36% PDB header:transcription Chain: A: PDB Molecule:huntingtin interacting protein b; PDBTitle: solution structure of the hset2/hypb sri domain Phyre2 PDB 2yf3 chain F Region: 22 - 31 Aligned: 10 Modelled: 10 Confidence: 11.7% Identity: 30% PDB header:hydrolase Chain: F: PDB Molecule:mazg-like nucleoside triphosphate pyrophosphohydrolase; PDBTitle: crystal structure of dr2231, the mazg-like protein from2 deinococcus radiodurans, complex with manganese Phyre2 PDB 3cxb chain A Region: 12 - 36 Aligned: 24 Modelled: 25 Confidence: 11.6% Identity: 38% PDB header:signaling protein Chain: A: PDB Molecule:protein sifa; PDBTitle: crystal structure of sifa and skip Phyre2 PDB 2y69 chain W Region: 1 - 20 Aligned: 20 Modelled: 20 Confidence: 11.1% Identity: 20% PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen Phyre2 PDB 1j3b chain A domain 1 Region: 15 - 21 Aligned: 7 Modelled: 7 Confidence: 9.3% Identity: 57% Fold: PEP carboxykinase-like Superfamily: PEP carboxykinase-like Family: PEP carboxykinase C-terminal domain Phyre2 PDB 2fun chain B Region: 20 - 31 Aligned: 12 Modelled: 12 Confidence: 8.6% Identity: 33% PDB header:apoptosis/hydrolase Chain: B: PDB Molecule:caspase-8; PDBTitle: alternative p35-caspase-8 complex Phyre2 PDB 2h51 chain B Region: 19 - 30 Aligned: 12 Modelled: 12 Confidence: 8.0% Identity: 25% PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:caspase-1; PDBTitle: crystal structure of human caspase-1 (glu390->asp and arg286->lys) in2 complex with 3-[2-(2-benzyloxycarbonylamino-3-methyl-butyrylamino)-3 propionylamino]-4-oxo-pentanoic acid (z-vad-fmk) Phyre2 PDB 3o7v chain X Region: 20 - 31 Aligned: 12 Modelled: 12 Confidence: 7.2% Identity: 33% PDB header:rna binding protein/rna Chain: X: PDB Molecule:piwi-like protein 1; PDBTitle: crystal structure of human hiwi1 (v361m) paz domain (residues 277-399)2 in complex with 14-mer rna (12-bp + 2-nt overhang) containing 2'-och33 at its 3'-end Phyre2 PDB 3o7x chain C Region: 23 - 31 Aligned: 9 Modelled: 9 Confidence: 7.1% Identity: 33% PDB header:rna binding protein Chain: C: PDB Molecule:piwi-like protein 2; PDBTitle: crystal structure of human hili paz domain Phyre2 PDB 3ph0 chain C Region: 1 - 16 Aligned: 16 Modelled: 16 Confidence: 6.3% Identity: 25% PDB header:chaperone Chain: C: PDB Molecule:ascg; PDBTitle: crystal structure of the heteromolecular chaperone, asce-ascg, from2 the type iii secretion system in aeromonas hydrophila Phyre2 1 c2rfpA_ 2 d1gpia_ 3 d2v3ia1 4 d1q9ha_ 5 c2rfyB_ 6 d1ojja_ 7 d3ovwa_ 8 d1eg1a_ 9 d2j88h1 10 d1v54j_ 11 c2a7oA_ 12 c2yf3F_ 13 c3cxbA_ 14 c2y69W_ 15 d1j3ba1 16 c2funB_ 17 c2h51B_ 18 c3o7vX_ 19 c3o7xC_ 20 c3ph0C_ 21 22 23

Detailed template information

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

1 c2rfpA_ 30.4 30 PDB header:hydrolase Chain: A: PDB Molecule:putative ntp pyrophosphohydrolase; PDBTitle: crystal structure of putative ntp pyrophosphohydrolase2 (yp_001813558.1) from exiguobacterium sibiricum 255-15 at 1.74 a3 resolution 2 d1gpia_ 19.9 60 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 3 d2v3ia1 19.3 70 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 4 d1q9ha_ 19.0 70 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 5 c2rfyB_ 17.8 50 PDB header:hydrolase Chain: B: PDB Molecule:cellulose 1,4-beta-cellobiosidase; PDBTitle: crystal structure of cellobiohydrolase from melanocarpus2 albomyces complexed with cellobiose 6 d1ojja_ 16.5 40 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 7 d3ovwa_ 14.6 50 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 8 d1eg1a_ 14.0 50 Fold:Concanavalin A-like lectins/glucanases Superfamily:Concanavalin A-like lectins/glucanases Family:Glycosyl hydrolase family 7 catalytic core 9 d2j88h1 13.8 67 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:C1 set domains (antibody constant domain-like) 10 d1v54j_ 13.4 20 Fold:Single transmembrane helix Superfamily:Mitochondrial cytochrome c oxidase subunit VIIa Family:Mitochondrial cytochrome c oxidase subunit VIIa 11 c2a7oA_ 11.8 36 PDB header:transcription Chain: A: PDB Molecule:huntingtin interacting protein b; PDBTitle: solution structure of the hset2/hypb sri domain 12 c2yf3F_ 11.7 30 PDB header:hydrolase Chain: F: PDB Molecule:mazg-like nucleoside triphosphate pyrophosphohydrolase; PDBTitle: crystal structure of dr2231, the mazg-like protein from2 deinococcus radiodurans, complex with manganese 13 c3cxbA_ 11.6 38 PDB header:signaling protein Chain: A: PDB Molecule:protein sifa; PDBTitle: crystal structure of sifa and skip 14 c2y69W_ 11.1 20 PDB header:electron transport Chain: W: PDB Molecule:cytochrome c oxidase polypeptide 7a1; PDBTitle: bovine heart cytochrome c oxidase re-refined with molecular2 oxygen 15 d1j3ba1 9.3 57 Fold:PEP carboxykinase-like Superfamily:PEP carboxykinase-like Family:PEP carboxykinase C-terminal domain 16 c2funB_ 8.6 33 PDB header:apoptosis/hydrolase Chain: B: PDB Molecule:caspase-8; PDBTitle: alternative p35-caspase-8 complex 17 c2h51B_ 8.0 25 PDB header:hydrolase/hydrolase inhibitor Chain: B: PDB Molecule:caspase-1; PDBTitle: crystal structure of human caspase-1 (glu390->asp and arg286->lys) in2 complex with 3-[2-(2-benzyloxycarbonylamino-3-methyl-butyrylamino)-3 propionylamino]-4-oxo-pentanoic acid (z-vad-fmk) 18 c3o7vX_ 7.2 33 PDB header:rna binding protein/rna Chain: X: PDB Molecule:piwi-like protein 1; PDBTitle: crystal structure of human hiwi1 (v361m) paz domain (residues 277-399)2 in complex with 14-mer rna (12-bp + 2-nt overhang) containing 2'-och33 at its 3'-end 19 c3o7xC_ 7.1 33 PDB header:rna binding protein Chain: C: PDB Molecule:piwi-like protein 2; PDBTitle: crystal structure of human hili paz domain 20 c3ph0C_ 6.3 25 PDB header:chaperone Chain: C: PDB Molecule:ascg; PDBTitle: crystal structure of the heteromolecular chaperone, asce-ascg, from2 the type iii secretion system in aeromonas hydrophila 21 c2p2cD_ not modelled 5.6 38 PDB header:hydrolase Chain: D: PDB Molecule:caspase-2; PDBTitle: inhibition of caspase-2 by a designed ankyrin repeat2 protein (darpin) 22 c3lklB_ not modelled 5.4 29 PDB header:transport protein Chain: B: PDB Molecule:antisigma-factor antagonist stas; PDBTitle: crystal structure of the c-terminal domain of anti-sigma factor2 antagonist stas from rhodobacter sphaeroides 23 c3h0dB_ not modelled 5.1 83 PDB header:transcription/dna Chain: B: PDB Molecule:ctsr; PDBTitle: crystal structure of ctsr in complex with a 26bp dna duplex

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