HL_6VWN_106

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

GUGAAAAGC

Length

9 nucleotides

Bulged bases

6VWN|1|2|A|1287

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_106 not in the Motif Atlas

Homologous match to HL_5J7L_165

Geometric discrepancy: 0.466

The information below is about HL_5J7L_165

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.8

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

140

Unit IDs

6VWN|1|2|G|1281
6VWN|1|2|U|1282
6VWN|1|2|G|1283
6VWN|1|2|A|1284
6VWN|1|2|A|1285
6VWN|1|2|A|1286
6VWN|1|2|A|1287
6VWN|1|2|G|1288
6VWN|1|2|C|1289

Current chains

Chain 2

23S ribosomal RNA

Nearby chains

Chain L

50S ribosomal protein L17

Chain Q

50S ribosomal protein L22