HL_6VWN_039

3D structure

PDB id

6VWN (explore in PDB, NAKB, or RNA 3D Hub)

Description

70S ribosome bound to HIV frameshifting stem-loop (FSS) and P-site tRNA (non-rotated conformation, Structure II)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.4 Å

Loop

Sequence

CUGGAAAG

Length

8 nucleotides

Bulged bases

6VWN|1|2|A|311

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_6VWN_039 not in the Motif Atlas

Homologous match to HL_5J7L_142

Geometric discrepancy: 0.1513

The information below is about HL_5J7L_142

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_01609.3

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

18

Unit IDs

6VWN|1|2|C|305
6VWN|1|2|U|306
6VWN|1|2|G|307
6VWN|1|2|G|308
6VWN|1|2|A|309
6VWN|1|2|A|310
6VWN|1|2|A|311
6VWN|1|2|G|312

Current chains

Chain 2

23S ribosomal RNA

Nearby chains

Chain S

50S ribosomal protein L24