HL_2OOM_004

3D structure

PDB id

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

Description

NMR structure of a kissing complex formed between the TAR RNA element of HIV-1 and a LNA/RNA aptamer

Experimental method

SOLUTION NMR

Resolution

Loop

Sequence

GGUCC(10C)(LCA)GAC

Length

10 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 10C, LCA

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_2OOM_004 not in the Motif Atlas

Geometric match to HL_2JLT_001

Geometric discrepancy: 0.3894

The information below is about HL_2JLT_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_14856.1

Basepair signature

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

Number of instances in this motif group

4

Unit IDs

2OOM|2|B|G|20
2OOM|2|B|G|21
2OOM|2|B|U|22
2OOM|2|B|C|23
2OOM|2|B|C|24
2OOM|2|B|10C|25
2OOM|2|B|LCA|26
2OOM|2|B|G|27
2OOM|2|B|A|28
2OOM|2|B|C|29

Current chains

Chain B

TAR RNA element of HIV-1

Nearby chains

Chain A

RNA 16-mer