Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	D	M	D	L	N	N	R	L	T	E	D	E	T	L	E	Q	A	Y	D	I	F	L	E	L	A	A	D	N	L	D	P	A	D	V	L	L	F	N	L	Q	F	E	E	R	G	G	A	E	L	F	D	P	A	E	D	W	Q	E	H
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?																			?																									?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.
Sequence		V	D	F	D	L	N	P	D	F	F	A	E	V	V	I	G	L	A	D	S	E	D	G	E	I	N	D	V	F	A	R	I	L	L	C	R	E	K	D	H	K	L	C	H	I	I	W	R	E
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 1nnv chain A Region: 7 - 109 Aligned: 102 Modelled: 103 Confidence: 100.0% Identity: 48% Fold: Cystatin-like Superfamily: Putative dsDNA mimic Family: Putative dsDNA mimic Phyre2 PDB 1bjz chain A Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 14.1% Identity: 21% PDB header:transcription regulation Chain: A: PDB Molecule:tetracycline repressor; PDBTitle: tetracycline chelated mg2+-ion initiates helix unwinding for tet2 repressor induction Phyre2 PDB 1bml chain D Region: 5 - 24 Aligned: 20 Modelled: 20 Confidence: 13.4% Identity: 30% PDB header:blood clotting Chain: D: PDB Molecule:streptokinase; PDBTitle: complex of the catalytic domain of human plasmin and streptokinase Phyre2 PDB 2np5 chain A domain 1 Region: 10 - 36 Aligned: 27 Modelled: 27 Confidence: 13.4% Identity: 11% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 1c4p chain C Region: 6 - 28 Aligned: 23 Modelled: 23 Confidence: 12.1% Identity: 26% Fold: beta-Grasp (ubiquitin-like) Superfamily: Staphylokinase/streptokinase Family: Staphylokinase/streptokinase Phyre2 PDB 1qqr chain A Region: 6 - 28 Aligned: 23 Modelled: 23 Confidence: 11.2% Identity: 26% Fold: beta-Grasp (ubiquitin-like) Superfamily: Staphylokinase/streptokinase Family: Staphylokinase/streptokinase Phyre2 PDB 2g7s chain A domain 1 Region: 6 - 36 Aligned: 31 Modelled: 31 Confidence: 10.8% Identity: 19% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 2vke chain A domain 1 Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 9.3% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 1x99 chain A Region: 69 - 109 Aligned: 35 Modelled: 35 Confidence: 9.0% Identity: 17% Fold: Cytolysin/lectin Superfamily: Cytolysin/lectin Family: Fungal fruit body lectin Phyre2 PDB 3htx chain A Region: 82 - 102 Aligned: 21 Modelled: 21 Confidence: 7.2% Identity: 38% PDB header:transferase/rna Chain: A: PDB Molecule:hen1; PDBTitle: crystal structure of small rna methyltransferase hen1 Phyre2 PDB 3o60 chain A Region: 1 - 36 Aligned: 36 Modelled: 36 Confidence: 7.1% Identity: 14% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin0861 protein; PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a Phyre2 PDB 1zk8 chain A domain 1 Region: 9 - 36 Aligned: 28 Modelled: 28 Confidence: 6.8% Identity: 21% Fold: DNA/RNA-binding 3-helical bundle Superfamily: Homeodomain-like Family: Tetracyclin repressor-like, N-terminal domain Phyre2 PDB 2hxi chain A Region: 8 - 36 Aligned: 29 Modelled: 29 Confidence: 5.7% Identity: 17% PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator from streptomyces coelicolor a3(2) Phyre2 PDB 2np5 chain A Region: 10 - 36 Aligned: 27 Modelled: 27 Confidence: 5.3% Identity: 11% PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator (rha1_ro04179) from2 rhodococcus sp. rha1. Phyre2 1 d1nnva_ 2 c1bjzA_ 3 c1bmlD_ 4 d2np5a1 5 d1c4pc_ 6 d1qqra_ 7 d2g7sa1 8 d2vkea1 9 d1x99a_ 10 c3htxA_ 11 c3o60A_ 12 d1zk8a1 13 c2hxiA_ 14 c2np5A_

Detailed template information

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

1 d1nnva_ 100.0 48 Fold:Cystatin-like Superfamily:Putative dsDNA mimic Family:Putative dsDNA mimic 2 c1bjzA_ 14.1 21 PDB header:transcription regulation Chain: A: PDB Molecule:tetracycline repressor; PDBTitle: tetracycline chelated mg2+-ion initiates helix unwinding for tet2 repressor induction 3 c1bmlD_ 13.4 30 PDB header:blood clotting Chain: D: PDB Molecule:streptokinase; PDBTitle: complex of the catalytic domain of human plasmin and streptokinase 4 d2np5a1 13.4 11 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 5 d1c4pc_ 12.1 26 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 6 d1qqra_ 11.2 26 Fold:beta-Grasp (ubiquitin-like) Superfamily:Staphylokinase/streptokinase Family:Staphylokinase/streptokinase 7 d2g7sa1 10.8 19 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 8 d2vkea1 9.3 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 9 d1x99a_ 9.0 17 Fold:Cytolysin/lectin Superfamily:Cytolysin/lectin Family:Fungal fruit body lectin 10 c3htxA_ 7.2 38 PDB header:transferase/rna Chain: A: PDB Molecule:hen1; PDBTitle: crystal structure of small rna methyltransferase hen1 11 c3o60A_ 7.1 14 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin0861 protein; PDBTitle: the crystal structure of lin0861 from listeria innocua to 2.8a 12 d1zk8a1 6.8 21 Fold:DNA/RNA-binding 3-helical bundle Superfamily:Homeodomain-like Family:Tetracyclin repressor-like, N-terminal domain 13 c2hxiA_ 5.7 17 PDB header:transcription Chain: A: PDB Molecule:putative transcriptional regulator; PDBTitle: structural genomics, the crystal structure of a putative2 transcriptional regulator from streptomyces coelicolor a3(2) 14 c2np5A_ 5.3 11 PDB header:transcription Chain: A: PDB Molecule:transcriptional regulator; PDBTitle: crystal structure of a transcriptional regulator (rha1_ro04179) from2 rhodococcus sp. rha1.

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