Effects of myosin variants on interacting-heads motif explain distinct hypertrophic and dilated cardiomyopathy phenotypes.

Alamo, L; Ware, J.S; Pinto, A; Gillilan, R.E; Seidman, J.G; Seidman, C.E; Padron, R.

5TBY

HUMAN BETA CARDIAC HEAVY MEROMYOSIN INTERACTING-HEADS MOTIF OBTAINED BY HOMOLOGY MODELING (USING SWISS-MODEL) OF HUMAN SEQUENCE FROM APHONOPELMA HOMOLOGY MODEL (PDB-3JBH), RIGIDLY FITTED TO HUMAN BETA-CARDIAC NEGATIVELY STAINED THICK FILAMENT 3D-RECONSTRUCTION (EMD-2240)

Structural Similarities for the Entities in PDB 5TBY

The following structural similarities have been found using the jFATCAT-rigid algorithm [1,2].

To reduce the number of hits, a 40% sequence identity clustering has been applied and a representative chain taken from each cluster. If the representative chain consists of multiple domains, each domain is included in the search. If available, the SCOP 1.75 domain assignment [3] is used. Otherwise algorithmic domain assignments are computed using the ProteinDomainParser [4].

Currently viewing only significant results (P-value < 0.001). Show all available results.

Cluster data are up-to-date as of: Sep-27-2017

Info & Help Documentation

A detailed description of the procedure for the all vs. all alignments is available.

You can also use the structure comparison tool to compare any 2 given structures

Entity #1 | Chains A,B

Description: Myosin-7 protein | Length: 1935

No structure alignment results are available for 5TBY.A, 5TBY.B explicitly.

These chains are represented by chain XXXX.null which has more than 95% sequence identity.

Show structure comparison results for representative XXXX.null

Entity #2 | Chains C,D

Description: Myosin light chain 3 protein | Length: 195

No structure alignment results are available for 5TBY.C, 5TBY.D explicitly.

These chains are represented by chain XXXX.null which has more than 90% sequence identity.

Show structure comparison results for representative XXXX.null

Entity #3 | Chains E,F

Description: Myosin regulatory light chain 2, ventricular/cardiac muscle isoform protein | Length: 166

No structure alignment results are available for 5TBY.E, 5TBY.F explicitly.

These chains are represented by chain 1EXR.a which has more than 40% sequence identity.

Show structure comparison results for representative 1EXR.a

References

[1] Andreas Prlić; Spencer Bliven; Peter W. Rose; Wolfgang F. Bluhm; Chris Bizon; Adam Godzik; Philip E. Bourne (2010)
Pre-calculated protein structure alignments at the RCSB PDB website
Bioinformatics 26: 2983-2985
[2] The all vs. all comparisons are based on jFATCAT (a Java port of the original FATCAT algorithm Yuzhen Ye & Adam Godzik (2003))
Flexible structure alignment by chaining aligned fragment pairs allowing twists.
Bioinformatics vol.19 suppl. 2. ii246-ii255.

[3] Andreeva A., Howorth D., Chandonia J.-M., Brenner S.E., Hubbard T.J.P., Chothia C., Murzin A.G. (2008).
Data growth and its impact on the SCOP database: new developments.
Nucl. Acids Res. 2008 36: D419-D425
[4] Alexandrov N., Shindyalov I. (2003)
PDP: protein domain parser.
Bioinformatics 2003 Feb;19(3);429-30.

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