Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	I	Q	R	D	I	E	Y	S	G	Q	Y	S	K	D	V	K	L	A	Q	K	R	H	K	D	M	N	K	L	K	Y	L	M	T	L	L	I	N	N	T	L	P	L	P	A	V	Y	K	D	H	P	L	Q	G	S	W	K	G	Y	R
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?																?																											?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.
Sequence		D	A	H	V	E	P	D	W	I	L	I	Y	K	L	T	D	K	L	L	R	F	E	R	T	G	T	H	A	A	L	F	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 1z8m chain A domain 1 Region: 3 - 91 Aligned: 88 Modelled: 89 Confidence: 100.0% Identity: 30% Fold: RelE-like Superfamily: RelE-like Family: RelE-like Phyre2 PDB 2otr chain A Region: 3 - 91 Aligned: 88 Modelled: 89 Confidence: 100.0% Identity: 36% PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein hp0892; PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori Phyre2 PDB 3oei chain H Region: 3 - 87 Aligned: 83 Modelled: 85 Confidence: 99.9% Identity: 18% PDB header:toxin, protein binding Chain: H: PDB Molecule:relk (toxin rv3358); PDBTitle: crystal structure of mycobacterium tuberculosis reljk (rv3357-rv3358-2 relbe3) Phyre2 PDB 2a6s chain A domain 1 Region: 5 - 87 Aligned: 81 Modelled: 83 Confidence: 99.9% Identity: 22% Fold: RelE-like Superfamily: RelE-like Family: YoeB/Txe-like Phyre2 PDB 2khe chain A Region: 2 - 91 Aligned: 85 Modelled: 90 Confidence: 99.2% Identity: 16% PDB header:hydrolase Chain: A: PDB Molecule:toxin-like protein; PDBTitle: solution structure of the bacterial toxin rele from thermus2 thermophilus hb8 Phyre2 PDB 3bpq chain D Region: 6 - 91 Aligned: 80 Modelled: 86 Confidence: 99.1% Identity: 14% PDB header:toxin Chain: D: PDB Molecule:toxin rele3; PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii Phyre2 PDB 3g5o chain C Region: 1 - 89 Aligned: 82 Modelled: 89 Confidence: 98.7% Identity: 17% PDB header:toxin/antitoxin Chain: C: PDB Molecule:uncharacterized protein rv2866; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis Phyre2 PDB 1wmi chain A domain 1 Region: 2 - 89 Aligned: 83 Modelled: 87 Confidence: 98.6% Identity: 18% Fold: RelE-like Superfamily: RelE-like Family: RelE-like Phyre2 PDB 3kix chain Y Region: 3 - 91 Aligned: 82 Modelled: 82 Confidence: 97.1% Identity: 12% PDB header:ribosome Chain: Y: PDB Molecule: PDBTitle: structure of rele nuclease bound to the 70s ribosome2 (postcleavage state; part 3 of 4) Phyre2 PDB 3kxe chain B Region: 4 - 81 Aligned: 71 Modelled: 78 Confidence: 91.6% Identity: 14% PDB header:protein binding Chain: B: PDB Molecule:toxin protein pare-1; PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex Phyre2 PDB 1vj7 chain A domain 2 Region: 24 - 64 Aligned: 41 Modelled: 41 Confidence: 32.4% Identity: 17% Fold: Nucleotidyltransferase Superfamily: Nucleotidyltransferase Family: RelA/SpoT domain Phyre2 PDB 2rbd chain B Region: 14 - 51 Aligned: 38 Modelled: 38 Confidence: 16.8% Identity: 26% PDB header:structural protein Chain: B: PDB Molecule:bh2358 protein; PDBTitle: crystal structure of a putative spore coat protein (bh2358) from2 bacillus halodurans c-125 at 1.54 a resolution Phyre2 PDB 2y9m chain B Region: 55 - 71 Aligned: 17 Modelled: 17 Confidence: 15.7% Identity: 12% PDB header:ligase/transport protein Chain: B: PDB Molecule:peroxisome assembly protein 22; PDBTitle: pex4p-pex22p structure Phyre2 PDB 1vj7 chain B Region: 24 - 64 Aligned: 41 Modelled: 41 Confidence: 15.4% Identity: 17% PDB header:hydrolase, transferase Chain: B: PDB Molecule:bifunctional rela/spot; PDBTitle: crystal structure of the bifunctional catalytic fragment of relseq,2 the rela/spot homolog from streptococcus equisimilis. Phyre2 PDB 1jya chain A Region: 58 - 73 Aligned: 15 Modelled: 12 Confidence: 15.0% Identity: 27% Fold: Secretion chaperone-like Superfamily: Type III secretory system chaperone-like Family: Type III secretory system chaperone Phyre2 PDB 2z15 chain A domain 1 Region: 2 - 66 Aligned: 62 Modelled: 65 Confidence: 10.4% Identity: 16% Fold: BTG domain-like Superfamily: BTG domain-like Family: BTG domain-like Phyre2 PDB 2d9g chain A Region: 57 - 64 Aligned: 8 Modelled: 8 Confidence: 9.7% Identity: 50% PDB header:transcription Chain: A: PDB Molecule:yy1-associated factor 2; PDBTitle: solution structure of the zf-ranbp domain of yy1-associated2 factor 2 Phyre2 PDB 3e9v chain A domain 1 Region: 2 - 66 Aligned: 59 Modelled: 61 Confidence: 9.4% Identity: 22% Fold: BTG domain-like Superfamily: BTG domain-like Family: BTG domain-like Phyre2 PDB 2ket chain A Region: 10 - 22 Aligned: 13 Modelled: 13 Confidence: 6.6% Identity: 23% PDB header:antibiotic Chain: A: PDB Molecule:cathelicidin-6; PDBTitle: solution structure of bmap-27 Phyre2 PDB 2qn6 chain A domain 2 Region: 54 - 86 Aligned: 33 Modelled: 33 Confidence: 5.9% Identity: 6% Fold: Elongation factor/aminomethyltransferase common domain Superfamily: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family: EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Phyre2 1 d1z8ma1 2 c2otrA_ 3 c3oeiH_ 4 d2a6sa1 5 c2kheA_ 6 c3bpqD_ 7 c3g5oC_ 8 d1wmia1 9 c3kixy_ 10 c3kxeB_ 11 d1vj7a2 12 c2rbdB_ 13 c2y9mB_ 14 c1vj7B_ 15 d1jyaa_ 16 d2z15a1 17 c2d9gA_ 18 d3e9va1 19 c2ketA_ 20 d2qn6a2

Detailed template information

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

1 d1z8ma1 100.0 30 Fold:RelE-like Superfamily:RelE-like Family:RelE-like 2 c2otrA_ 100.0 36 PDB header:structural genomics, unknown function Chain: A: PDB Molecule:hypothetical protein hp0892; PDBTitle: solution structure of conserved hypothetical protein hp0892 from2 helicobacter pylori 3 c3oeiH_ 99.9 18 PDB header:toxin, protein binding Chain: H: PDB Molecule:relk (toxin rv3358); PDBTitle: crystal structure of mycobacterium tuberculosis reljk (rv3357-rv3358-2 relbe3) 4 d2a6sa1 99.9 22 Fold:RelE-like Superfamily:RelE-like Family:YoeB/Txe-like 5 c2kheA_ 99.2 16 PDB header:hydrolase Chain: A: PDB Molecule:toxin-like protein; PDBTitle: solution structure of the bacterial toxin rele from thermus2 thermophilus hb8 6 c3bpqD_ 99.1 14 PDB header:toxin Chain: D: PDB Molecule:toxin rele3; PDBTitle: crystal structure of relb-rele antitoxin-toxin complex from2 methanococcus jannaschii 7 c3g5oC_ 98.7 17 PDB header:toxin/antitoxin Chain: C: PDB Molecule:uncharacterized protein rv2866; PDBTitle: the crystal structure of the toxin-antitoxin complex relbe2 (rv2865-2 2866) from mycobacterium tuberculosis 8 d1wmia1 98.6 18 Fold:RelE-like Superfamily:RelE-like Family:RelE-like 9 c3kixy_ 97.1 12 PDB header:ribosome Chain: Y: PDB Molecule: PDBTitle: structure of rele nuclease bound to the 70s ribosome2 (postcleavage state; part 3 of 4) 10 c3kxeB_ 91.6 14 PDB header:protein binding Chain: B: PDB Molecule:toxin protein pare-1; PDBTitle: a conserved mode of protein recognition and binding in a2 pard-pare toxin-antitoxin complex 11 d1vj7a2 32.4 17 Fold:Nucleotidyltransferase Superfamily:Nucleotidyltransferase Family:RelA/SpoT domain 12 c2rbdB_ 16.8 26 PDB header:structural protein Chain: B: PDB Molecule:bh2358 protein; PDBTitle: crystal structure of a putative spore coat protein (bh2358) from2 bacillus halodurans c-125 at 1.54 a resolution 13 c2y9mB_ 15.7 12 PDB header:ligase/transport protein Chain: B: PDB Molecule:peroxisome assembly protein 22; PDBTitle: pex4p-pex22p structure 14 c1vj7B_ 15.4 17 PDB header:hydrolase, transferase Chain: B: PDB Molecule:bifunctional rela/spot; PDBTitle: crystal structure of the bifunctional catalytic fragment of relseq,2 the rela/spot homolog from streptococcus equisimilis. 15 d1jyaa_ 15.0 27 Fold:Secretion chaperone-like Superfamily:Type III secretory system chaperone-like Family:Type III secretory system chaperone 16 d2z15a1 10.4 16 Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like 17 c2d9gA_ 9.7 50 PDB header:transcription Chain: A: PDB Molecule:yy1-associated factor 2; PDBTitle: solution structure of the zf-ranbp domain of yy1-associated2 factor 2 18 d3e9va1 9.4 22 Fold:BTG domain-like Superfamily:BTG domain-like Family:BTG domain-like 19 c2ketA_ 6.6 23 PDB header:antibiotic Chain: A: PDB Molecule:cathelicidin-6; PDBTitle: solution structure of bmap-27 20 d2qn6a2 5.9 6 Fold:Elongation factor/aminomethyltransferase common domain Superfamily:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain Family:EF-Tu/eEF-1alpha/eIF2-gamma C-terminal 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