IL_5J1O_006

3D structure

PDB id

5J1O (explore in PDB, NAKB, or RNA 3D Hub)

Description

Excited state (Bound-like) sampled during RDC restrained Replica-averaged Metadynamics (RAM) simulations of the HIV-1 TAR complexed with cyclic peptide mimetic of Tat

Experimental method

SOLUTION NMR

Resolution

Loop

Sequence

CC*GAG

Length

5 nucleotides

Bulged bases

5J1O|3|B|A|35

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

IL_5J1O_006 not in the Motif Atlas

Geometric match to IL_6D3P_004

Geometric discrepancy: 0.2324

The information below is about IL_6D3P_004

Detailed Annotation

Single bulged A

Broad Annotation

No text annotation

Motif group

IL_31462.7

Basepair signature

cWW-L-cWW

Number of instances in this motif group

132

Unit IDs

5J1O|3|B|C|29
5J1O|3|B|C|30
*
5J1O|3|B|G|34
5J1O|3|B|A|35
5J1O|3|B|G|36

Current chains

Chain B

Apical region (29mer) of the HIV-1 TAR element

Nearby chains

Chain A

Cyclic peptide mimetic of Tat