NMR structure of the HIV-1 nucleocapsid protein bound to stem-loop sl2 of the psi-RNA packaging signal. Implications for genome recognition

Structural Similarities for the Entities in PDB 1F6U

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.

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Entity #1 | Chains B

Description: HIV-1 STEM-LOOP SL2 FROM PSI-RNA PACKAGING rna | Length: 19

This entity is NOT a polypeptide entity and therefore cannot be considered for the all vs. all structure alignments.

Entity #2 | Chains A

Description: HIV-1 NUCLEOCAPSID PROTEIN protein | Length: 56

No structure alignment results are available for 1F6U.A explicitly.

It is represented by chain 5I1R.A which has more than 90% sequence identity.

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View how chain 1F6U.A compares with the representative chain PDP:5I1RA_. Select a comparison method: