Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	A	S	E	N	M	T	P	Q	D	Y	I	G	H	H	L	N	N	L	Q	L	D	L	R	T	F	S	L	V	D	P	Q	N	P	P	A	T	F	W	T	I	N	I	D	S	M	F	F	S	V	V	L	G	L	L	F	L	V	L	F
Secondary structure
SS confidence
Disorder		?	?	?	?	?	?	?	?	?																					?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.	.	.	.	.	100	.	.	.	.	.	.	.	.	.	110	.	.	.	.	.	.	.	.	.	120
Sequence		R	S	V	A	K	K	A	T	S	G	V	P	G	K	F	Q	T	A	I	E	L	V	I	G	F	V	N	G	S	V	K	D	M	Y	H	G	K	S	K	L	I	A	P	L	A	L	T	I	F	V	W	V	F	L	M	N	L	M	D	L
Secondary structure
SS confidence
Disorder						?	?	?	?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	130	.	.	.	.	.	.	.	.	.	140	.	.	.	.	.	.	.	.	.	150	.	.	.	.	.	.	.	.	.	160	.	.	.	.	.	.	.	.	.	170	.	.	.	.	.	.	.	.	.	180
Sequence		L	P	I	D	L	L	P	Y	I	A	E	H	V	L	G	L	P	A	L	R	V	V	P	S	A	D	V	N	V	T	L	S	M	A	L	G	V	F	I	L	I	L	F	Y	S	I	K	M	K	G	I	G	G	F	T	K	E	L	T	L
Secondary structure
SS confidence
Disorder																?	?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	190	.	.	.	.	.	.	.	.	.	200	.	.	.	.	.	.	.	.	.	210	.	.	.	.	.	.	.	.	.	220	.	.	.	.	.	.	.	.	.	230	.	.	.	.	.	.	.	.	.	240
Sequence		Q	P	F	N	H	W	A	F	I	P	V	N	L	I	L	E	G	V	S	L	L	S	K	P	V	S	L	G	L	R	L	F	G	N	M	Y	A	G	E	L	I	F	I	L	I	A	G	L	L	P	W	W	S	Q	W	I	L	N	V	P
Secondary structure
SS confidence
Disorder
Disorder confidence
		.	.	.	.	.	.	.	.	.	250	.	.	.	.	.	.	.	.	.	260	.	.	.	.	.	.	.	.	.	270	.
Sequence		W	A	I	F	H	I	L	I	I	T	L	Q	A	F	I	F	M	V	L	T	I	V	Y	L	S	M	A	S	E	E	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 1c17 chain M Region: 95 - 265 Aligned: 142 Modelled: 142 Confidence: 100.0% Identity: 77% Fold: F1F0 ATP synthase subunit A Superfamily: F1F0 ATP synthase subunit A Family: F1F0 ATP synthase subunit A Phyre2 PDB 3qbr chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 20.4% Identity: 15% PDB header:apoptosis Chain: A: PDB Molecule:sjchgc06286 protein; PDBTitle: bakbh3 in complex with sja Phyre2 PDB 1o0l chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 13.5% Identity: 13% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1f16 chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 12.7% Identity: 17% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 2w50 chain B Region: 196 - 209 Aligned: 14 Modelled: 14 Confidence: 12.2% Identity: 21% PDB header:hormone Chain: B: PDB Molecule:armet-like protein 1; PDBTitle: n-terminal domain of human conserved dopamine neurotrophic2 factor (cdnf) Phyre2 PDB 2o2f chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 11.8% Identity: 4% PDB header:apoptosis Chain: A: PDB Molecule:apoptosis regulator bcl-2; PDBTitle: solution structure of the anti-apoptotic protein bcl-2 in2 complex with an acyl-sulfonamide-based ligand Phyre2 PDB 2xa0 chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 11.8% Identity: 4% PDB header:apoptosis Chain: A: PDB Molecule:apoptosis regulator bcl-2; PDBTitle: crystal structure of bcl-2 in complex with a bax bh32 peptide Phyre2 PDB 2bid chain A Region: 57 - 87 Aligned: 31 Modelled: 31 Confidence: 11.8% Identity: 32% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 3gae chain A Region: 207 - 217 Aligned: 11 Modelled: 11 Confidence: 10.5% Identity: 27% PDB header:nuclear protein Chain: A: PDB Molecule:protein doa1; PDBTitle: crystal structure of pul Phyre2 PDB 1bxl chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 10.3% Identity: 4% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1ddb chain A Region: 57 - 88 Aligned: 32 Modelled: 32 Confidence: 10.3% Identity: 25% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1pq1 chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 10.0% Identity: 4% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1zy3 chain A domain 1 Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 9.8% Identity: 13% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 1m3v chain A domain 2 Region: 209 - 214 Aligned: 6 Modelled: 6 Confidence: 8.4% Identity: 83% Fold: Glucocorticoid receptor-like (DNA-binding domain) Superfamily: Glucocorticoid receptor-like (DNA-binding domain) Family: LIM domain Phyre2 PDB 1g5m chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 8.3% Identity: 4% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 3ebb chain D Region: 207 - 217 Aligned: 11 Modelled: 11 Confidence: 7.9% Identity: 45% PDB header:chaperone Chain: D: PDB Molecule:phospholipase a2-activating protein; PDBTitle: plap/p97 complex Phyre2 PDB 1kn0 chain A Region: 208 - 217 Aligned: 10 Modelled: 10 Confidence: 7.7% Identity: 50% Fold: dsRBD-like Superfamily: dsRNA-binding domain-like Family: The homologous-pairing domain of Rad52 recombinase Phyre2 PDB 1ysg chain A domain 1 Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 7.6% Identity: 4% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 PDB 3pk1 chain A Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 7.5% Identity: 9% PDB header:apoptosis/apoptosis regulator Chain: A: PDB Molecule:induced myeloid leukemia cell differentiation protein mcl- PDBTitle: crystal structure of mcl-1 in complex with the baxbh3 domain Phyre2 PDB 2pon chain B domain 1 Region: 52 - 98 Aligned: 47 Modelled: 47 Confidence: 6.7% Identity: 4% Fold: Toxins' membrane translocation domains Superfamily: Bcl-2 inhibitors of programmed cell death Family: Bcl-2 inhibitors of programmed cell death Phyre2 1 d1c17m_ 2 c3qbrA_ 3 d1o0la_ 4 d1f16a_ 5 c2w50B_ 6 c2o2fA_ 7 c2xa0A_ 8 d2bida_ 9 c3gaeA_ 10 d1bxla_ 11 d1ddba_ 12 d1pq1a_ 13 d1zy3a1 14 d1m3va2 15 d1g5ma_ 16 c3ebbD_ 17 d1kn0a_ 18 d1ysga1 19 c3pk1A_ 20 d2ponb1 21 22 23 24 25 26 27 28 29

Detailed template information

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

1 d1c17m_ 100.0 77 Fold:F1F0 ATP synthase subunit A Superfamily:F1F0 ATP synthase subunit A Family:F1F0 ATP synthase subunit A 2 c3qbrA_ 20.4 15 PDB header:apoptosis Chain: A: PDB Molecule:sjchgc06286 protein; PDBTitle: bakbh3 in complex with sja 3 d1o0la_ 13.5 13 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 4 d1f16a_ 12.7 17 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 5 c2w50B_ 12.2 21 PDB header:hormone Chain: B: PDB Molecule:armet-like protein 1; PDBTitle: n-terminal domain of human conserved dopamine neurotrophic2 factor (cdnf) 6 c2o2fA_ 11.8 4 PDB header:apoptosis Chain: A: PDB Molecule:apoptosis regulator bcl-2; PDBTitle: solution structure of the anti-apoptotic protein bcl-2 in2 complex with an acyl-sulfonamide-based ligand 7 c2xa0A_ 11.8 4 PDB header:apoptosis Chain: A: PDB Molecule:apoptosis regulator bcl-2; PDBTitle: crystal structure of bcl-2 in complex with a bax bh32 peptide 8 d2bida_ 11.8 32 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 9 c3gaeA_ 10.5 27 PDB header:nuclear protein Chain: A: PDB Molecule:protein doa1; PDBTitle: crystal structure of pul 10 d1bxla_ 10.3 4 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 11 d1ddba_ 10.3 25 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 12 d1pq1a_ 10.0 4 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 13 d1zy3a1 9.8 13 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 14 d1m3va2 8.4 83 Fold:Glucocorticoid receptor-like (DNA-binding domain) Superfamily:Glucocorticoid receptor-like (DNA-binding domain) Family:LIM domain 15 d1g5ma_ 8.3 4 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 16 c3ebbD_ 7.9 45 PDB header:chaperone Chain: D: PDB Molecule:phospholipase a2-activating protein; PDBTitle: plap/p97 complex 17 d1kn0a_ 7.7 50 Fold:dsRBD-like Superfamily:dsRNA-binding domain-like Family:The homologous-pairing domain of Rad52 recombinase 18 d1ysga1 7.6 4 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 19 c3pk1A_ 7.5 9 PDB header:apoptosis/apoptosis regulator Chain: A: PDB Molecule:induced myeloid leukemia cell differentiation protein mcl- PDBTitle: crystal structure of mcl-1 in complex with the baxbh3 domain 20 d2ponb1 6.7 4 Fold:Toxins' membrane translocation domains Superfamily:Bcl-2 inhibitors of programmed cell death Family:Bcl-2 inhibitors of programmed cell death 21 d1o0sa2 not modelled 6.3 18 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 22 d1pj3a2 not modelled 6.2 15 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 23 d1tdza1 not modelled 6.2 40 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 24 c3pstA_ not modelled 6.1 27 PDB header:nuclear protein Chain: A: PDB Molecule:protein doa1; PDBTitle: crystal structure of pul and pfu(mutate) domain 25 c2yv6A_ not modelled 6.1 13 PDB header:apoptosis Chain: A: PDB Molecule:bcl-2 homologous antagonist/killer; PDBTitle: crystal structure of human bcl-2 family protein bak 26 c2w51A_ not modelled 5.5 23 PDB header:hormone Chain: A: PDB Molecule:protein armet; PDBTitle: human mesencephalic astrocyte-derived neurotrophic factor (2 manf) 27 d1gq2a2 not modelled 5.5 15 Fold:Aminoacid dehydrogenase-like, N-terminal domain Superfamily:Aminoacid dehydrogenase-like, N-terminal domain Family:Malic enzyme N-domain 28 d1k3xa1 not modelled 5.4 30 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins 29 d1r2za1 not modelled 5.1 50 Fold:S13-like H2TH domain Superfamily:S13-like H2TH domain Family:Middle domain of MutM-like DNA repair proteins

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