Secondary structure and disorder prediction

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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 3r7k chain B Region: 31 - 49 Aligned: 18 Modelled: 19 Confidence: 32.0% Identity: 22% PDB header:oxidoreductase Chain: B: PDB Molecule:probable acyl coa dehydrogenase; PDBTitle: crystal structure of a probable acyl coa dehydrogenase from2 mycobacterium abscessus atcc 19977 / dsm 44196 Phyre2 PDB 1vlb chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 30.1% Identity: 21% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1v97 chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 28.9% Identity: 14% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1ffv chain A domain 1 Region: 32 - 48 Aligned: 17 Modelled: 17 Confidence: 28.6% Identity: 18% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 2cmp chain A Region: 35 - 47 Aligned: 13 Modelled: 13 Confidence: 26.4% Identity: 38% PDB header:terminase Chain: A: PDB Molecule:terminase small subunit; PDBTitle: crystal structure of the dna binding domain of g1p small2 terminase subunit from bacteriophage sf6 Phyre2 PDB 1ffu chain A Region: 9 - 48 Aligned: 36 Modelled: 40 Confidence: 23.4% Identity: 17% PDB header:hydrolase Chain: A: PDB Molecule:cuts, iron-sulfur protein of carbon monoxide PDBTitle: carbon monoxide dehydrogenase from hydrogenophaga2 pseudoflava which lacks the mo-pyranopterin moiety of the3 molybdenum cofactor Phyre2 PDB 1jro chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 20.5% Identity: 36% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1dgj chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 20.4% Identity: 36% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1zxi chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 19.1% Identity: 21% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1rm6 chain C domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 17.5% Identity: 36% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 3b9j chain I Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 16.8% Identity: 14% PDB header:oxidoreductase Chain: I: PDB Molecule:xanthine oxidase; PDBTitle: structure of xanthine oxidase with 2-hydroxy-6-methylpurine Phyre2 PDB 1t3q chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 15.4% Identity: 29% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1t3q chain D Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 14.7% Identity: 29% PDB header:oxidoreductase Chain: D: PDB Molecule:quinoline 2-oxidoreductase small subunit; PDBTitle: crystal structure of quinoline 2-oxidoreductase from pseudomonas2 putida 86 Phyre2 PDB 3hrd chain H Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 13.8% Identity: 36% PDB header:oxidoreductase Chain: H: PDB Molecule:nicotinate dehydrogenase small fes subunit; PDBTitle: crystal structure of nicotinate dehydrogenase Phyre2 PDB 1rm6 chain F Region: 27 - 48 Aligned: 22 Modelled: 22 Confidence: 13.6% Identity: 23% PDB header:oxidoreductase Chain: F: PDB Molecule:4-hydroxybenzoyl-coa reductase gamma subunit; PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica Phyre2 PDB 1lj2 chain B Region: 38 - 47 Aligned: 10 Modelled: 10 Confidence: 13.5% Identity: 50% PDB header:viral protein/ translation Chain: B: PDB Molecule:nonstructural rna-binding protein 34; PDBTitle: recognition of eif4g by rotavirus nsp3 reveals a basis for2 mrna circularization Phyre2 PDB 2jp7 chain A Region: 35 - 49 Aligned: 15 Modelled: 15 Confidence: 13.2% Identity: 13% PDB header:translation Chain: A: PDB Molecule:mrna export factor mex67; PDBTitle: nmr structure of the mex67 uba domain Phyre2 PDB 1n62 chain A domain 1 Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 12.0% Identity: 21% Fold: CO dehydrogenase ISP C-domain like Superfamily: CO dehydrogenase ISP C-domain like Family: CO dehydrogenase ISP C-domain like Phyre2 PDB 1n60 chain D Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 10.5% Identity: 21% PDB header:oxidoreductase Chain: D: PDB Molecule:carbon monoxide dehydrogenase small chain; PDBTitle: crystal structure of the cu,mo-co dehydrogenase (codh); cyanide-2 inactivated form Phyre2 PDB 3eub chain J Region: 35 - 48 Aligned: 14 Modelled: 14 Confidence: 9.8% Identity: 14% PDB header:oxidoreductase Chain: J: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of desulfo-xanthine oxidase with xanthine Phyre2 1 c3r7kB_ 2 d1vlba1 3 d1v97a1 4 d1ffva1 5 c2cmpA_ 6 c1ffuA_ 7 d1jroa1 8 d1dgja1 9 d1zxia1 10 d1rm6c1 11 c3b9jI_ 12 d1t3qa1 13 c1t3qD_ 14 c3hrdH_ 15 c1rm6F_ 16 c1lj2B_ 17 c2jp7A_ 18 d1n62a1 19 c1n60D_ 20 c3eubJ_ 21 22 23 24 25 26 27 28 29 30

Detailed template information

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

1 c3r7kB_ 32.0 22 PDB header:oxidoreductase Chain: B: PDB Molecule:probable acyl coa dehydrogenase; PDBTitle: crystal structure of a probable acyl coa dehydrogenase from2 mycobacterium abscessus atcc 19977 / dsm 44196 2 d1vlba1 30.1 21 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 3 d1v97a1 28.9 14 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 4 d1ffva1 28.6 18 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 5 c2cmpA_ 26.4 38 PDB header:terminase Chain: A: PDB Molecule:terminase small subunit; PDBTitle: crystal structure of the dna binding domain of g1p small2 terminase subunit from bacteriophage sf6 6 c1ffuA_ 23.4 17 PDB header:hydrolase Chain: A: PDB Molecule:cuts, iron-sulfur protein of carbon monoxide PDBTitle: carbon monoxide dehydrogenase from hydrogenophaga2 pseudoflava which lacks the mo-pyranopterin moiety of the3 molybdenum cofactor 7 d1jroa1 20.5 36 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 8 d1dgja1 20.4 36 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 9 d1zxia1 19.1 21 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 10 d1rm6c1 17.5 36 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 11 c3b9jI_ 16.8 14 PDB header:oxidoreductase Chain: I: PDB Molecule:xanthine oxidase; PDBTitle: structure of xanthine oxidase with 2-hydroxy-6-methylpurine 12 d1t3qa1 15.4 29 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 13 c1t3qD_ 14.7 29 PDB header:oxidoreductase Chain: D: PDB Molecule:quinoline 2-oxidoreductase small subunit; PDBTitle: crystal structure of quinoline 2-oxidoreductase from pseudomonas2 putida 86 14 c3hrdH_ 13.8 36 PDB header:oxidoreductase Chain: H: PDB Molecule:nicotinate dehydrogenase small fes subunit; PDBTitle: crystal structure of nicotinate dehydrogenase 15 c1rm6F_ 13.6 23 PDB header:oxidoreductase Chain: F: PDB Molecule:4-hydroxybenzoyl-coa reductase gamma subunit; PDBTitle: structure of 4-hydroxybenzoyl-coa reductase from thauera2 aromatica 16 c1lj2B_ 13.5 50 PDB header:viral protein/ translation Chain: B: PDB Molecule:nonstructural rna-binding protein 34; PDBTitle: recognition of eif4g by rotavirus nsp3 reveals a basis for2 mrna circularization 17 c2jp7A_ 13.2 13 PDB header:translation Chain: A: PDB Molecule:mrna export factor mex67; PDBTitle: nmr structure of the mex67 uba domain 18 d1n62a1 12.0 21 Fold:CO dehydrogenase ISP C-domain like Superfamily:CO dehydrogenase ISP C-domain like Family:CO dehydrogenase ISP C-domain like 19 c1n60D_ 10.5 21 PDB header:oxidoreductase Chain: D: PDB Molecule:carbon monoxide dehydrogenase small chain; PDBTitle: crystal structure of the cu,mo-co dehydrogenase (codh); cyanide-2 inactivated form 20 c3eubJ_ 9.8 14 PDB header:oxidoreductase Chain: J: PDB Molecule:xanthine dehydrogenase/oxidase; PDBTitle: crystal structure of desulfo-xanthine oxidase with xanthine 21 c2qguA_ not modelled 8.8 33 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:probable signal peptide protein; PDBTitle: three-dimensional structure of the phospholipid-binding protein from2 ralstonia solanacearum q8xv73_ralsq in complex with a phospholipid at3 the resolution 1.53 a. northeast structural genomics consortium4 target rsr89 22 c3t97B_ not modelled 8.5 36 PDB header:protein transport Chain: B: PDB Molecule:nuclear pore complex protein nup54; PDBTitle: molecular architecture of the transport channel of the nuclear pore2 complex: nup62/nup54 23 d1hd6a_ not modelled 8.1 25 Fold:Protozoan pheromone-like Superfamily:Protozoan pheromone proteins Family:Protozoan pheromone proteins 24 d1mzba_ not modelled 7.0 5 Fold:DNA/RNA-binding 3-helical bundle Superfamily:"Winged helix" DNA-binding domain Family:FUR-like 25 c3i38F_ not modelled 6.9 22 PDB header:chaperone Chain: F: PDB Molecule:putative chaperone dnaj; PDBTitle: structure of a putative chaperone protein dnaj from klebsiella2 pneumoniae subsp. pneumoniae mgh 78578 26 d1al3a_ not modelled 6.8 22 Fold:Periplasmic binding protein-like II Superfamily:Periplasmic binding protein-like II Family:Phosphate binding protein-like 27 c1al3A_ not modelled 6.8 22 PDB header:transcription regulation Chain: A: PDB Molecule:cys regulon transcriptional activator cysb; PDBTitle: cofactor binding fragment of cysb from klebsiella aerogenes 28 c2xznT_ not modelled 6.8 19 PDB header:ribosome Chain: T: PDB Molecule:rps19e; PDBTitle: crystal structure of the eukaryotic 40s ribosomal2 subunit in complex with initiation factor 1. this file3 contains the 40s subunit and initiation factor for4 molecule 2 29 c3fiaA_ not modelled 6.0 19 PDB header:protein binding Chain: A: PDB Molecule:intersectin-1; PDBTitle: crystal structure of the eh 1 domain from human intersectin-2 1 protein. northeast structural genomics consortium target3 hr3646e. 30 c3kxeD_ not modelled 5.9 50 PDB header:protein binding Chain: D: PDB Molecule:antitoxin protein pard-1; PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex

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