Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	K	F	R	L	G	G	F	E	A	I	K	S	A	Y	M	A	Q	V	Q	Y	S	M	W	V	T	R	K	D	A	W	Y	F	A	N	Y	D	P	R	M	K	R	E	G	L	H	Y	V	V	I	E	R	N	E	K	Y	M	A	S	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?				?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.
Sequence		D	E	M	V	P	E	F	I	E	K	M	D	E	A	L	A	E	I	G	F	V	F	G	E	Q	W	R
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 1avq chain A Region: 7 - 87 Aligned: 81 Modelled: 81 Confidence: 100.0% Identity: 96% Fold: Restriction endonuclease-like Superfamily: Restriction endonuclease-like Family: lambda exonuclease Phyre2 PDB 3k93 chain A Region: 15 - 79 Aligned: 65 Modelled: 65 Confidence: 97.4% Identity: 20% PDB header:hydrolase Chain: A: PDB Molecule:phage related exonuclease; PDBTitle: crystal structure of phage related exonuclease (yp_719632.1) from2 haemophilus somnus 129pt at 2.15 a resolution Phyre2 PDB 1jbj chain A domain 2 Region: 29 - 49 Aligned: 21 Modelled: 21 Confidence: 15.8% Identity: 24% Fold: Immunoglobulin-like beta-sandwich Superfamily: Immunoglobulin Family: I set domains Phyre2 PDB 2gts chain A domain 1 Region: 50 - 82 Aligned: 33 Modelled: 33 Confidence: 14.0% Identity: 15% Fold: Ferritin-like Superfamily: HP0062-like Family: HP0062-like Phyre2 PDB 1zaw chain U Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.5% Identity: 15% PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a Phyre2 PDB 1zaw chain W Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.5% Identity: 15% PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a Phyre2 PDB 1zav chain U domain 1 Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.5% Identity: 15% Fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Phyre2 PDB 1zax chain U Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.5% Identity: 15% PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1zav chain U Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.5% Identity: 15% PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 Phyre2 PDB 1zax chain W Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.2% Identity: 15% PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1zav chain V Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.0% Identity: 15% PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 Phyre2 PDB 1zax chain V Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 10.0% Identity: 15% PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1zav chain W Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 9.7% Identity: 15% PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 Phyre2 PDB 1zaw chain V Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 8.7% Identity: 15% PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a Phyre2 PDB 1dd3 chain D Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 8.6% Identity: 15% PDB header:ribosome Chain: D: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima Phyre2 PDB 1dd3 chain C Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 8.6% Identity: 15% PDB header:ribosome Chain: C: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima Phyre2 PDB 2ktl chain A Region: 39 - 59 Aligned: 21 Modelled: 21 Confidence: 8.2% Identity: 19% PDB header:ligase Chain: A: PDB Molecule:tyrosyl-trna synthetase; PDBTitle: structure of c-terminal domain from mttyrrs of a. nidulans Phyre2 PDB 1qzf chain A domain 2 Region: 78 - 87 Aligned: 10 Modelled: 10 Confidence: 7.7% Identity: 50% Fold: Thymidylate synthase/dCMP hydroxymethylase Superfamily: Thymidylate synthase/dCMP hydroxymethylase Family: Thymidylate synthase/dCMP hydroxymethylase Phyre2 PDB 1dd4 chain C Region: 57 - 83 Aligned: 27 Modelled: 27 Confidence: 6.4% Identity: 15% Fold: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family: Ribosomal protein L7/12, oligomerisation (N-terminal) domain Phyre2 PDB 1j3k chain C Region: 78 - 87 Aligned: 10 Modelled: 10 Confidence: 5.6% Identity: 50% Fold: Thymidylate synthase/dCMP hydroxymethylase Superfamily: Thymidylate synthase/dCMP hydroxymethylase Family: Thymidylate synthase/dCMP hydroxymethylase Phyre2 1 d1avqa_ 2 c3k93A_ 3 d1jbja2 4 d2gtsa1 5 c1zawU_ 6 c1zawW_ 7 d1zavu1 8 c1zaxU_ 9 c1zavU_ 10 c1zaxW_ 11 c1zavV_ 12 c1zaxV_ 13 c1zavW_ 14 c1zawV_ 15 c1dd3D_ 16 c1dd3C_ 17 c2ktlA_ 18 d1qzfa2 19 d1dd4c_ 20 d1j3kc_ 21

Detailed template information

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

1 d1avqa_ 100.0 96 Fold:Restriction endonuclease-like Superfamily:Restriction endonuclease-like Family:lambda exonuclease 2 c3k93A_ 97.4 20 PDB header:hydrolase Chain: A: PDB Molecule:phage related exonuclease; PDBTitle: crystal structure of phage related exonuclease (yp_719632.1) from2 haemophilus somnus 129pt at 2.15 a resolution 3 d1jbja2 15.8 24 Fold:Immunoglobulin-like beta-sandwich Superfamily:Immunoglobulin Family:I set domains 4 d2gtsa1 14.0 15 Fold:Ferritin-like Superfamily:HP0062-like Family:HP0062-like 5 c1zawU_ 10.5 15 PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 6 c1zawW_ 10.5 15 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 7 d1zavu1 10.5 15 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 8 c1zaxU_ 10.5 15 PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 9 c1zavU_ 10.5 15 PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 10 c1zaxW_ 10.2 15 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 11 c1zavV_ 10.0 15 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 12 c1zaxV_ 10.0 15 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 13 c1zavW_ 9.7 15 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 14 c1zawV_ 8.7 15 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 15 c1dd3D_ 8.6 15 PDB header:ribosome Chain: D: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 16 c1dd3C_ 8.6 15 PDB header:ribosome Chain: C: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 17 c2ktlA_ 8.2 19 PDB header:ligase Chain: A: PDB Molecule:tyrosyl-trna synthetase; PDBTitle: structure of c-terminal domain from mttyrrs of a. nidulans 18 d1qzfa2 7.7 50 Fold:Thymidylate synthase/dCMP hydroxymethylase Superfamily:Thymidylate synthase/dCMP hydroxymethylase Family:Thymidylate synthase/dCMP hydroxymethylase 19 d1dd4c_ 6.4 15 Fold:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Superfamily:Ribosomal protein L7/12, oligomerisation (N-terminal) domain Family:Ribosomal protein L7/12, oligomerisation (N-terminal) domain 20 d1j3kc_ 5.6 50 Fold:Thymidylate synthase/dCMP hydroxymethylase Superfamily:Thymidylate synthase/dCMP hydroxymethylase Family:Thymidylate synthase/dCMP hydroxymethylase 21 c1p9iA_ not modelled 5.3 27 PDB header:unknown function Chain: A: PDB Molecule:cortexillin i/gcn4 hybrid peptide; PDBTitle: coiled-coil x-ray structure at 1.17 a resolution

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