Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	Y	E	I	K	Q	E	E	K	R	T	V	A	G	F	H	L	V	G	P	W	E	Q	T	V	K	K	G	F	E	Q	L	M	M	W	V	D	S	K	N	I	V	P	K	E	W	V	A	V	Y	Y	D	N	P	D	E	T	P	A
Secondary structure
SS confidence
Disorder		?	?	?																																					?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		E	K	L	R	C	D	T	V	V	T	V	P	G	Y	F	T	L	P	E	N	S	E	G	V	I	L	T	E	I	T	G	G	Q	Y	A	V	A	V	A	R	V	V	G	D	D	F	A	K	P	W	Y	Q	F	F	N	S	L	L	Q	D
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.
Sequence		S	A	Y	E	M	L	P	K	P	C	F	E	V	Y	L	N	N	G	A	E	D	G	Y	W	D	I	E	M	Y	V	A	V	Q	P	K	H	H
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 1jyh chain A Region: 1 - 155 Aligned: 155 Modelled: 155 Confidence: 100.0% Identity: 100% Fold: Probable bacterial effector-binding domain Superfamily: Probable bacterial effector-binding domain Family: Gyrase inhibitory protein GyrI (SbmC, YeeB) Phyre2 PDB 3lur chain B Region: 1 - 153 Aligned: 149 Modelled: 152 Confidence: 100.0% Identity: 13% PDB header:transcription activator Chain: B: PDB Molecule:putative bacterial transcription regulation protein; PDBTitle: crystal structure of putative bacterial transcription regulation2 protein (np_372959.1) from staphylococcus aureus mu50 at 1.81 a3 resolution Phyre2 PDB 1d5y chain A domain 3 Region: 1 - 155 Aligned: 154 Modelled: 155 Confidence: 100.0% Identity: 8% Fold: Probable bacterial effector-binding domain Superfamily: Probable bacterial effector-binding domain Family: Rob transcription factor, C-terminal domain Phyre2 PDB 1d5y chain D Region: 1 - 155 Aligned: 154 Modelled: 155 Confidence: 100.0% Identity: 8% PDB header:transcription/dna Chain: D: PDB Molecule:rob transcription factor; PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna Phyre2 PDB 3gk6 chain A Region: 1 - 153 Aligned: 140 Modelled: 150 Confidence: 100.0% Identity: 16% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein vch_cass2; PDBTitle: crystal structure from the mobile metagenome of vibrio cholerae.2 integron cassette protein vch_cass2. Phyre2 PDB 2kcu chain A Region: 1 - 154 Aligned: 146 Modelled: 154 Confidence: 100.0% Identity: 12% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ctr107; PDBTitle: nmr solution structure of an uncharacterized protein from2 chlorobium tepidum. northeast structural genomics target3 ctr107 Phyre2 PDB 3b49 chain A Region: 2 - 152 Aligned: 150 Modelled: 151 Confidence: 99.9% Identity: 10% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin2189 protein; PDBTitle: crystal structure of an uncharacterized conserved protein from2 listeria innocua Phyre2 PDB 1r8e chain A domain 2 Region: 2 - 152 Aligned: 149 Modelled: 151 Confidence: 99.8% Identity: 11% Fold: Probable bacterial effector-binding domain Superfamily: Probable bacterial effector-binding domain Family: Multidrug-binding domain of transcription activator BmrR Phyre2 PDB 3d6z chain A Region: 2 - 153 Aligned: 150 Modelled: 152 Confidence: 99.7% Identity: 11% PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine Phyre2 PDB 3r8k chain B Region: 2 - 153 Aligned: 150 Modelled: 152 Confidence: 97.8% Identity: 15% PDB header:apoptosis Chain: B: PDB Molecule:heme-binding protein 2; PDBTitle: crystal structure of human soul protein (hexagonal form) Phyre2 PDB 2gov chain A domain 1 Region: 2 - 150 Aligned: 147 Modelled: 149 Confidence: 97.7% Identity: 14% Fold: Probable bacterial effector-binding domain Superfamily: Probable bacterial effector-binding domain Family: SOUL heme-binding protein Phyre2 PDB 2z51 chain A Region: 2 - 120 Aligned: 116 Modelled: 119 Confidence: 10.8% Identity: 11% PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 2, chloroplast; PDBTitle: crystal structure of arabidopsis cnfu involved in iron-2 sulfur cluster biosynthesis Phyre2 1 d1jyha_ 2 c3lurB_ 3 d1d5ya3 4 c1d5yD_ 5 c3gk6A_ 6 c2kcuA_ 7 c3b49A_ 8 d1r8ea2 9 c3d6zA_ 10 c3r8kB_ 11 d2gova1 12 c2z51A_

Detailed template information

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

1 d1jyha_ 100.0 100 Fold:Probable bacterial effector-binding domain Superfamily:Probable bacterial effector-binding domain Family:Gyrase inhibitory protein GyrI (SbmC, YeeB) 2 c3lurB_ 100.0 13 PDB header:transcription activator Chain: B: PDB Molecule:putative bacterial transcription regulation protein; PDBTitle: crystal structure of putative bacterial transcription regulation2 protein (np_372959.1) from staphylococcus aureus mu50 at 1.81 a3 resolution 3 d1d5ya3 100.0 8 Fold:Probable bacterial effector-binding domain Superfamily:Probable bacterial effector-binding domain Family:Rob transcription factor, C-terminal domain 4 c1d5yD_ 100.0 8 PDB header:transcription/dna Chain: D: PDB Molecule:rob transcription factor; PDBTitle: crystal structure of the e. coli rob transcription factor2 in complex with dna 5 c3gk6A_ 100.0 16 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:integron cassette protein vch_cass2; PDBTitle: crystal structure from the mobile metagenome of vibrio cholerae.2 integron cassette protein vch_cass2. 6 c2kcuA_ 100.0 12 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:protein ctr107; PDBTitle: nmr solution structure of an uncharacterized protein from2 chlorobium tepidum. northeast structural genomics target3 ctr107 7 c3b49A_ 99.9 10 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:lin2189 protein; PDBTitle: crystal structure of an uncharacterized conserved protein from2 listeria innocua 8 d1r8ea2 99.8 11 Fold:Probable bacterial effector-binding domain Superfamily:Probable bacterial effector-binding domain Family:Multidrug-binding domain of transcription activator BmrR 9 c3d6zA_ 99.7 11 PDB header:transcription regulator/dna Chain: A: PDB Molecule:multidrug-efflux transporter 1 regulator; PDBTitle: crystal structure of r275e mutant of bmrr bound to dna and rhodamine 10 c3r8kB_ 97.8 15 PDB header:apoptosis Chain: B: PDB Molecule:heme-binding protein 2; PDBTitle: crystal structure of human soul protein (hexagonal form) 11 d2gova1 97.7 14 Fold:Probable bacterial effector-binding domain Superfamily:Probable bacterial effector-binding domain Family:SOUL heme-binding protein 12 c2z51A_ 10.8 11 PDB header:metal transport Chain: A: PDB Molecule:nifu-like protein 2, chloroplast; PDBTitle: crystal structure of arabidopsis cnfu involved in iron-2 sulfur cluster biosynthesis

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