Secondary structure and disorder prediction

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Sequence

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G

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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 2d58 chain A Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 9.9% Identity: 42% PDB header:metal binding protein Chain: A: PDB Molecule:allograft inflammatory factor 1; PDBTitle: human microglia-specific protein iba1 Phyre2 PDB 2pq3 chain A domain 1 Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 8.7% Identity: 33% Fold: EF Hand-like Superfamily: EF-hand Family: Calmodulin-like Phyre2 PDB 1wrk chain A domain 1 Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 8.5% Identity: 25% Fold: EF Hand-like Superfamily: EF-hand Family: Calmodulin-like Phyre2 PDB 2g2b chain A Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 8.1% Identity: 42% PDB header:immune system Chain: A: PDB Molecule:allograft inflammatory factor 1; PDBTitle: nmr structure of the human allograft inflammatory factor 1 Phyre2 PDB 1zc1 chain A Region: 5 - 18 Aligned: 14 Modelled: 14 Confidence: 7.6% Identity: 29% PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites Phyre2 PDB 2vtg chain A Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 7.3% Identity: 42% PDB header:metal-binding protein Chain: A: PDB Molecule:ionized calcium-binding adapter molecule 2; PDBTitle: crystal structure of human iba2, trigonal crystal form Phyre2 PDB 1rh1 chain A domain 2 Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 6.6% Identity: 33% Fold: Toxins' membrane translocation domains Superfamily: Colicin Family: Colicin Phyre2 PDB 1col chain A Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 6.5% Identity: 44% Fold: Toxins' membrane translocation domains Superfamily: Colicin Family: Colicin Phyre2 PDB 2i88 chain A Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 6.3% Identity: 33% PDB header:membrane protein Chain: A: PDB Molecule:colicin-e1; PDBTitle: crystal structure of the channel-forming domain of colicin2 e1 Phyre2 PDB 2khf chain A Region: 7 - 12 Aligned: 6 Modelled: 6 Confidence: 5.9% Identity: 67% PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in dpc-micelles Phyre2 PDB 1nwd chain B Region: 9 - 14 Aligned: 6 Modelled: 6 Confidence: 5.7% Identity: 67% PDB header:binding protein/hydrolase Chain: B: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase Phyre2 PDB 1nwd chain C Region: 9 - 14 Aligned: 6 Modelled: 6 Confidence: 5.7% Identity: 67% PDB header:binding protein/hydrolase Chain: C: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase Phyre2 PDB 2ktg chain A Region: 8 - 19 Aligned: 12 Modelled: 12 Confidence: 5.7% Identity: 25% PDB header:ca-binding protein Chain: A: PDB Molecule:calmodulin, putative; PDBTitle: calmodulin like protein from entamoeba histolytica: solution structure2 and calcium binding properties of a partially folded protein Phyre2 PDB 1avs chain A Region: 8 - 20 Aligned: 13 Modelled: 13 Confidence: 5.6% Identity: 23% Fold: EF Hand-like Superfamily: EF-hand Family: Calmodulin-like Phyre2 PDB 2k5c chain A Region: 9 - 17 Aligned: 9 Modelled: 9 Confidence: 5.4% Identity: 56% PDB header:metal binding protein Chain: A: PDB Molecule:uncharacterized protein pf0385; PDBTitle: nmr structure for pf0385 Phyre2 PDB 1a87 chain A Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 33% PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n Phyre2 PDB 1a87 chain A Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 5.3% Identity: 33% Fold: Toxins' membrane translocation domains Superfamily: Colicin Family: Colicin Phyre2 PDB 2yuj chain A Region: 5 - 18 Aligned: 14 Modelled: 14 Confidence: 5.2% Identity: 36% PDB header:protein binding Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like; PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1 Phyre2 PDB 1cii chain A domain 1 Region: 5 - 13 Aligned: 9 Modelled: 9 Confidence: 5.2% Identity: 22% Fold: Toxins' membrane translocation domains Superfamily: Colicin Family: Colicin Phyre2 1 c2d58A_ 2 d2pq3a1 3 d1wrka1 4 c2g2bA_ 5 c1zc1A_ 6 c2vtgA_ 7 d1rh1a2 8 d1cola_ 9 c2i88A_ 10 c2khfA_ 11 c1nwdB_ 12 c1nwdC_ 13 c2ktgA_ 14 d1avsa_ 15 c2k5cA_ 16 c1a87A_ 17 d1a87a_ 18 c2yujA_ 19 d1ciia1

Detailed template information

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

1 c2d58A_ 9.9 42 PDB header:metal binding protein Chain: A: PDB Molecule:allograft inflammatory factor 1; PDBTitle: human microglia-specific protein iba1 2 d2pq3a1 8.7 33 Fold:EF Hand-like Superfamily:EF-hand Family:Calmodulin-like 3 d1wrka1 8.5 25 Fold:EF Hand-like Superfamily:EF-hand Family:Calmodulin-like 4 c2g2bA_ 8.1 42 PDB header:immune system Chain: A: PDB Molecule:allograft inflammatory factor 1; PDBTitle: nmr structure of the human allograft inflammatory factor 1 5 c1zc1A_ 7.6 29 PDB header:protein turnover Chain: A: PDB Molecule:ubiquitin fusion degradation protein 1; PDBTitle: ufd1 exhibits the aaa-atpase fold with two distinct2 ubiquitin interaction sites 6 c2vtgA_ 7.3 42 PDB header:metal-binding protein Chain: A: PDB Molecule:ionized calcium-binding adapter molecule 2; PDBTitle: crystal structure of human iba2, trigonal crystal form 7 d1rh1a2 6.6 33 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 8 d1cola_ 6.5 44 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 9 c2i88A_ 6.3 33 PDB header:membrane protein Chain: A: PDB Molecule:colicin-e1; PDBTitle: crystal structure of the channel-forming domain of colicin2 e1 10 c2khfA_ 5.9 67 PDB header:antimicrobial protein Chain: A: PDB Molecule:plnj; PDBTitle: plantaricin j in dpc-micelles 11 c1nwdB_ 5.7 67 PDB header:binding protein/hydrolase Chain: B: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase 12 c1nwdC_ 5.7 67 PDB header:binding protein/hydrolase Chain: C: PDB Molecule:glutamate decarboxylase; PDBTitle: solution structure of ca2+/calmodulin bound to the c-2 terminal domain of petunia glutamate decarboxylase 13 c2ktgA_ 5.7 25 PDB header:ca-binding protein Chain: A: PDB Molecule:calmodulin, putative; PDBTitle: calmodulin like protein from entamoeba histolytica: solution structure2 and calcium binding properties of a partially folded protein 14 d1avsa_ 5.6 23 Fold:EF Hand-like Superfamily:EF-hand Family:Calmodulin-like 15 c2k5cA_ 5.4 56 PDB header:metal binding protein Chain: A: PDB Molecule:uncharacterized protein pf0385; PDBTitle: nmr structure for pf0385 16 c1a87A_ 5.3 33 PDB header:bacteriocin Chain: A: PDB Molecule:colicin n; PDBTitle: colicin n 17 d1a87a_ 5.3 33 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin 18 c2yujA_ 5.2 36 PDB header:protein binding Chain: A: PDB Molecule:ubiquitin fusion degradation 1-like; PDBTitle: solution structure of human ubiquitin fusion degradation2 protein 1 homolog ufd1 19 d1ciia1 5.2 22 Fold:Toxins' membrane translocation domains Superfamily:Colicin Family:Colicin

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