BAFF/BLyS receptor 3 comprises a minimal TNF receptor-like module that encodes a highly focused ligand-binding site

Gordon, N.C; Pan, B; Hymowitz, S.G; Yin, J.P; Kelley, R.F; Cochran, A.G; Yan, M; Dixit, V.M; Fairbrother, W.J; Starovasnik, M.A.

Structural Similarities for the Entities in PDB 1OSG

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

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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,C,D,E,F

Description: Tumor necrosis factor ligand superfamily member 13B protein | Length: 208

No structure alignment results are available for 1OSG.A, 1OSG.B, 1OSG.C, 1OSG.D, 1OSG.E, 1OSG.F explicitly.

These chains are represented by chain 3V56.A which is 100% sequence identical.

Show structure comparison results for representative 3V56.A

Entity #2 | Chains G,H,I,J,K,L

Description: BR3 derived PEPTIDE protein | Length: 12

This entity is too short to be considered for the all vs. all structure alignments.

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.

158549 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

1OSG

Complex between BAFF and a BR3 derived peptide presented in a beta-hairpin scaffold

Structural Similarities for the Entities in PDB 1OSG

Info & Help Documentation

No structure alignment results are available for 1OSG.A, 1OSG.B, 1OSG.C, 1OSG.D, 1OSG.E, 1OSG.F explicitly.

This entity is too short to be considered for the all vs. all structure alignments.

References

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158549 Biological Macromolecular Structures Enabling Breakthroughs in Research and Education

1OSG

Complex between BAFF and a BR3 derived peptide presented in a beta-hairpin scaffold

Structural Similarities for the Entities in PDB 1OSG

Info & Help Documentation

No structure alignment results are available for 1OSG.A, 1OSG.B, 1OSG.C, 1OSG.D, 1OSG.E, 1OSG.F explicitly.

This entity is too short to be considered for the all vs. all structure alignments.

References