HL_2D19_008

3D structure

PDB id

2D19 (explore in PDB, NAKB, or RNA 3D Hub)

Description

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

Experimental method

SOLUTION NMR

Resolution

Loop

Sequence

GAAGUGCACAC

Length

11 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

HL_2D19_008 not in the Motif Atlas

Geometric match to HL_4PJO_001

Geometric discrepancy: 0.2804

The information below is about HL_4PJO_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_67407.5

Basepair signature

cWW-F-F-F-F-F-F-F-F

Number of instances in this motif group

10

Unit IDs

2D19|4|B|G|4
2D19|4|B|A|5
2D19|4|B|A|6
2D19|4|B|G|7
2D19|4|B|U|8
2D19|4|B|G|9
2D19|4|B|C|10
2D19|4|B|A|11
2D19|4|B|C|12
2D19|4|B|A|13
2D19|4|B|C|14

Current chains

Chain B

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

Nearby chains

Chain A

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