IL_2D18_008

3D structure

PDB id

2D18 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Solution RNA structure of loop region of the HIV-1 dimerization initiation site in the extended-duplex dimer

Experimental method

SOLUTION NMR

Resolution

Loop

Sequence

CAC*GAAG

Length

7 nucleotides

Bulged bases

None detected

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_2D18_008 not in the Motif Atlas

Geometric match to IL_4V9F_053

Geometric discrepancy: 0.3444

The information below is about IL_4V9F_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_49140.1

Basepair signature

cWW-L-R-L-cWW

Number of instances in this motif group

4

Unit IDs

2D18|4|A|C|12
2D18|4|A|A|13
2D18|4|A|C|14
*
2D18|4|B|G|4
2D18|4|B|A|5
2D18|4|B|A|6
2D18|4|B|G|7

Current chains

Chain A

5'-R(*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*GP*GP*C)-3'

Chain B

5'-R(*GP*CP*UP*GP*AP*AP*GP*UP*GP*CP*AP*CP*AP*CP*GP*GP*C)-3'

Nearby chains