Secondary structure and disorder prediction

		1	.	.	.	.	.	.	.	.	10	.	.	.	.	.	.	.	.	.	20	.	.	.	.	.	.	.	.	.	30	.	.	.	.	.	.	.	.	.	40	.	.	.	.	.	.	.	.	.	50	.	.	.	.	.	.	.	.	.	60
Sequence		M	N	E	V	V	N	S	G	V	M	N	I	A	S	L	V	V	S	V	V	V	L	L	I	G	L	I	L	W	F	F	I	N	R	A	S	S	R	T	N	E	Q	I	E	L	L	E	A	L	L	D	Q	Q	K	R	Q	N	A	L	L
Secondary structure
SS confidence
Disorder		?	?																																			?	?	?
Disorder confidence
		.	.	.	.	.	.	.	.	.	70	.	.	.	.	.	.	.	.	.	80	.	.	.	.	.	.	.	.	.	90	.	.	.	.	.
Sequence		R	R	L	C	E	A	N	E	P	E	K	A	D	K	K	T	V	E	S	Q	K	S	V	E	D	E	D	I	I	R	L	V	A	E	R
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 2oar chain A Region: 7 - 57 Aligned: 49 Modelled: 51 Confidence: 78.7% Identity: 14% PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) Phyre2 PDB 2rdd chain B Region: 18 - 58 Aligned: 25 Modelled: 25 Confidence: 54.6% Identity: 40% PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. Phyre2 PDB 2ifo chain A Region: 5 - 35 Aligned: 31 Modelled: 31 Confidence: 39.9% Identity: 19% PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: model-building studies of inovirus: genetic variations on a2 geometric theme Phyre2 PDB 2oar chain A domain 1 Region: 7 - 49 Aligned: 41 Modelled: 43 Confidence: 35.7% Identity: 12% Fold: Gated mechanosensitive channel Superfamily: Gated mechanosensitive channel Family: Gated mechanosensitive channel Phyre2 PDB 3hd7 chain A Region: 15 - 31 Aligned: 17 Modelled: 17 Confidence: 20.0% Identity: 35% PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 Phyre2 PDB 3lm3 chain A Region: 70 - 94 Aligned: 25 Modelled: 25 Confidence: 17.5% Identity: 32% PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative glycoside hydrolase/deacetylase2 (bdi_3119) from parabacteroides distasonis at 1.44 a resolution Phyre2 PDB 3fd9 chain C Region: 55 - 65 Aligned: 11 Modelled: 8 Confidence: 15.2% Identity: 55% PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the transcriptional anti-activator exsd2 from pseudomonas aeruginosa Phyre2 PDB 2k9y chain B Region: 7 - 34 Aligned: 28 Modelled: 28 Confidence: 14.1% Identity: 43% PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 2k9y chain A Region: 7 - 34 Aligned: 28 Modelled: 28 Confidence: 12.0% Identity: 43% PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 Phyre2 PDB 3l4q chain A Region: 13 - 44 Aligned: 29 Modelled: 29 Confidence: 11.5% Identity: 34% PDB header:viral protein/protein binding Chain: A: PDB Molecule:non-structural protein 1; PDBTitle: structural insights into phosphoinositide 3-kinase2 activation by the influenza a virus ns1 protein Phyre2 PDB 2a93 chain B Region: 50 - 67 Aligned: 18 Modelled: 18 Confidence: 11.0% Identity: 50% PDB header:leucine zippers Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper; PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures Phyre2 PDB 2gx9 chain A domain 1 Region: 13 - 44 Aligned: 29 Modelled: 32 Confidence: 9.5% Identity: 34% Fold: Ns1 effector domain-like Superfamily: Ns1 effector domain-like Family: Ns1 effector domain-like Phyre2 PDB 2r6g chain F domain 1 Region: 15 - 34 Aligned: 20 Modelled: 20 Confidence: 8.8% Identity: 30% Fold: MalF N-terminal region-like Superfamily: MalF N-terminal region-like Family: MalF N-terminal region-like Phyre2 PDB 2kub chain A Region: 39 - 55 Aligned: 17 Modelled: 17 Confidence: 6.8% Identity: 29% PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: solution structure of the alpha subdomain of the major non-repeat unit2 of fap1 fimbriae of streptococcus parasanguis Phyre2 PDB 3rgu chain A Region: 39 - 55 Aligned: 17 Modelled: 17 Confidence: 6.6% Identity: 29% PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: structure of fap-nra at ph 5.0 Phyre2 PDB 1f93 chain H Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 6.2% Identity: 45% PDB header:transcription Chain: H: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh Phyre2 PDB 1g39 chain B Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 6.2% Identity: 45% PDB header:transcription Chain: B: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: wild-type hnf-1alpha dimerization domain Phyre2 PDB 1g39 chain D Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 6.2% Identity: 45% PDB header:transcription Chain: D: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: wild-type hnf-1alpha dimerization domain Phyre2 PDB 1f93 chain F Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 6.1% Identity: 45% PDB header:transcription Chain: F: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh Phyre2 PDB 1f93 chain F Region: 42 - 63 Aligned: 22 Modelled: 22 Confidence: 6.1% Identity: 45% Fold: Dimerisation interlock Superfamily: Dimerization cofactor of HNF-1 alpha Family: Dimerization cofactor of HNF-1 alpha Phyre2 1 c2oarA_ 2 c2rddB_ 3 c2ifoA_ 4 d2oara1 5 c3hd7A_ 6 c3lm3A_ 7 c3fd9C_ 8 c2k9yB_ 9 c2k9yA_ 10 c3l4qA_ 11 c2a93B_ 12 d2gx9a1 13 d2r6gf1 14 c2kubA_ 15 c3rguA_ 16 c1f93H_ 17 c1g39B_ 18 c1g39D_ 19 c1f93F_ 20 d1f93f_ 21 22 23

Detailed template information

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

1 c2oarA_ 78.7 14 PDB header:membrane protein Chain: A: PDB Molecule:large-conductance mechanosensitive channel; PDBTitle: mechanosensitive channel of large conductance (mscl) 2 c2rddB_ 54.6 40 PDB header:membrane protein/transport protein Chain: B: PDB Molecule:upf0092 membrane protein yajc; PDBTitle: x-ray crystal structure of acrb in complex with a novel2 transmembrane helix. 3 c2ifoA_ 39.9 19 PDB header:virus Chain: A: PDB Molecule:inovirus; PDBTitle: model-building studies of inovirus: genetic variations on a2 geometric theme 4 d2oara1 35.7 12 Fold:Gated mechanosensitive channel Superfamily:Gated mechanosensitive channel Family:Gated mechanosensitive channel 5 c3hd7A_ 20.0 35 PDB header:exocytosis Chain: A: PDB Molecule:vesicle-associated membrane protein 2; PDBTitle: helical extension of the neuronal snare complex into the membrane,2 spacegroup c 1 2 1 6 c3lm3A_ 17.5 32 PDB header:unknown function Chain: A: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of a putative glycoside hydrolase/deacetylase2 (bdi_3119) from parabacteroides distasonis at 1.44 a resolution 7 c3fd9C_ 15.2 55 PDB header:unknown function Chain: C: PDB Molecule:uncharacterized protein; PDBTitle: crystal structure of the transcriptional anti-activator exsd2 from pseudomonas aeruginosa 8 c2k9yB_ 14.1 43 PDB header:transferase Chain: B: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 9 c2k9yA_ 12.0 43 PDB header:transferase Chain: A: PDB Molecule:ephrin type-a receptor 2; PDBTitle: epha2 dimeric structure in the lipidic bicelle at ph 5.0 10 c3l4qA_ 11.5 34 PDB header:viral protein/protein binding Chain: A: PDB Molecule:non-structural protein 1; PDBTitle: structural insights into phosphoinositide 3-kinase2 activation by the influenza a virus ns1 protein 11 c2a93B_ 11.0 50 PDB header:leucine zippers Chain: B: PDB Molecule:c-myc-max heterodimeric leucine zipper; PDBTitle: nmr solution structure of the c-myc-max heterodimeric2 leucine zipper, 40 structures 12 d2gx9a1 9.5 34 Fold:Ns1 effector domain-like Superfamily:Ns1 effector domain-like Family:Ns1 effector domain-like 13 d2r6gf1 8.8 30 Fold:MalF N-terminal region-like Superfamily:MalF N-terminal region-like Family:MalF N-terminal region-like 14 c2kubA_ 6.8 29 PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: solution structure of the alpha subdomain of the major non-repeat unit2 of fap1 fimbriae of streptococcus parasanguis 15 c3rguA_ 6.6 29 PDB header:structural protein Chain: A: PDB Molecule:fimbriae-associated protein fap1; PDBTitle: structure of fap-nra at ph 5.0 16 c1f93H_ 6.2 45 PDB header:transcription Chain: H: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh 17 c1g39B_ 6.2 45 PDB header:transcription Chain: B: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: wild-type hnf-1alpha dimerization domain 18 c1g39D_ 6.2 45 PDB header:transcription Chain: D: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: wild-type hnf-1alpha dimerization domain 19 c1f93F_ 6.1 45 PDB header:transcription Chain: F: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh 20 d1f93f_ 6.1 45 Fold:Dimerisation interlock Superfamily:Dimerization cofactor of HNF-1 alpha Family:Dimerization cofactor of HNF-1 alpha 21 c1dipA_ not modelled 6.1 30 PDB header:acetylation Chain: A: PDB Molecule:delta-sleep-inducing peptide immunoreactive PDBTitle: the solution structure of porcine delta-sleep-inducing2 peptide immunoreactive peptide, nmr, 10 structures 22 c1f93E_ not modelled 6.1 45 PDB header:transcription Chain: E: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh 23 c1f93G_ not modelled 6.0 45 PDB header:transcription Chain: G: PDB Molecule:hepatocyte nuclear factor 1-alpha; PDBTitle: crystal structure of a complex between the dimerization2 domain of hnf-1 alpha and the coactivator dcoh

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

Transmembrane helix prediction

Transmembrane helices have been predicted in your sequence to adopt the topology shown below

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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