Secondary structure and disorder prediction

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Sequence		M	H	A	T	T	V	K	N	K	I	T	Q	R	D	N	Y	K	E	I	M	S	A	I	V	V	V	L	L	L	T	L	T	L	I	A	I	F	S	A	I	D	Q	L	S	I	S	E	M	G	R	I	A	R	D	L	T	H	F	I	I
Secondary structure
SS confidence
Disorder		?	?	?	?						?	?	?	?	?
Disorder confidence
		.	.	.	.	.
Sequence		N	S	L	Q	G
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 1dd3 chain D Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 63.6% Identity: 33% 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: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 63.6% Identity: 33% PDB header:ribosome Chain: C: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima Phyre2 PDB 1zaw chain W Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.8% Identity: 33% 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 1zaw chain U Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.8% Identity: 33% 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 1zav chain Y Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.7% Identity: 33% PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 Phyre2 PDB 1zav chain U Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.5% Identity: 33% 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 1zav chain U domain 1 Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.5% Identity: 33% 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: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.5% Identity: 33% 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 1zax chain X Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.2% Identity: 33% PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1zav chain X Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.2% Identity: 33% PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 Phyre2 PDB 1zax chain Y Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.1% Identity: 33% PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1zax chain W Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.1% Identity: 33% 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 W Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.1% Identity: 33% 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 1zav chain V Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.0% Identity: 33% 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: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 60.0% Identity: 33% 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 1zaw chain V Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 59.9% Identity: 33% 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 1zax chain Z Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 55.7% Identity: 33% PDB header:structural protein Chain: Z: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b Phyre2 PDB 1dd4 chain C Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 51.8% Identity: 33% 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 1dd4 chain D Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 23.9% Identity: 33% 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 1zaw chain Y Region: 32 - 55 Aligned: 24 Modelled: 24 Confidence: 13.3% Identity: 33% PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a Phyre2 1 c1dd3D_ 2 c1dd3C_ 3 c1zawW_ 4 c1zawU_ 5 c1zavY_ 6 c1zavU_ 7 d1zavu1 8 c1zaxU_ 9 c1zaxX_ 10 c1zavX_ 11 c1zaxY_ 12 c1zaxW_ 13 c1zavW_ 14 c1zavV_ 15 c1zaxV_ 16 c1zawV_ 17 c1zaxZ_ 18 d1dd4c_ 19 d1dd4d_ 20 c1zawY_ 21 22 23 24 25 26 27

Detailed template information

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

1 c1dd3D_ 63.6 33 PDB header:ribosome Chain: D: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 2 c1dd3C_ 63.6 33 PDB header:ribosome Chain: C: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: crystal structure of ribosomal protein l12 from thermotoga maritima 3 c1zawW_ 60.8 33 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 4 c1zawU_ 60.8 33 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 5 c1zavY_ 60.7 33 PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 6 c1zavU_ 60.5 33 PDB header:structural protein Chain: U: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 7 d1zavu1 60.5 33 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_ 60.5 33 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 c1zaxX_ 60.2 33 PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 10 c1zavX_ 60.2 33 PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 11 c1zaxY_ 60.1 33 PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 12 c1zaxW_ 60.1 33 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 13 c1zavW_ 60.1 33 PDB header:structural protein Chain: W: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 14 c1zavV_ 60.0 33 PDB header:structural protein Chain: V: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 15 c1zaxV_ 60.0 33 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 16 c1zawV_ 59.9 33 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 17 c1zaxZ_ 55.7 33 PDB header:structural protein Chain: Z: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form b 18 d1dd4c_ 51.8 33 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 19 d1dd4d_ 23.9 33 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 c1zawY_ 13.3 33 PDB header:structural protein Chain: Y: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 21 c1zawX_ not modelled 13.3 33 PDB header:structural protein Chain: X: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 22 d1zavz1 not modelled 11.5 35 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 23 c1zavZ_ not modelled 11.5 35 PDB header:structural protein Chain: Z: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p21 24 c1zawZ_ not modelled 11.5 35 PDB header:structural protein Chain: Z: PDB Molecule:50s ribosomal protein l7/l12; PDBTitle: ribosomal protein l10-l12(ntd) complex, space group p212121,2 form a 25 d1dd3a1 not modelled 11.5 33 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 26 d1xmec1 not modelled 7.8 41 Fold:Single transmembrane helix Superfamily:Bacterial ba3 type cytochrome c oxidase subunit IIa Family:Bacterial ba3 type cytochrome c oxidase subunit IIa 27 c2a7oA_ not modelled 7.2 33 PDB header:transcription Chain: A: PDB Molecule:huntingtin interacting protein b; PDBTitle: solution structure of the hset2/hypb sri domain

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