HL_2OOM_013

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

CCUGGGAG

Length

8 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_2OOM_013 not in the Motif Atlas

Geometric match to HL_6VMY_003

Geometric discrepancy: 0.3558

The information below is about HL_6VMY_003

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_30680.5

Basepair signature

cWW-F-F-F-F-F

Number of instances in this motif group

16

Unit IDs

2OOM|7|A|C|5
2OOM|7|A|C|6
2OOM|7|A|U|7
2OOM|7|A|G|8
2OOM|7|A|G|9
2OOM|7|A|G|10
2OOM|7|A|A|11
2OOM|7|A|G|12

Current chains

Chain A

RNA 16-mer

Nearby chains

Chain B

TAR RNA element of HIV-1