J4_6VWM_006

3D structure

PDB id

6VWM (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 I)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.4 Å

Loop

Sequence

CGAUAAA*UC*GCUU*AG

Length

15 nucleotides

Bulged bases

6VWM|1|2|G|1271, 6VWM|1|2|A|1272, 6VWM|1|2|U|1273, 6VWM|1|2|A|1274, 6VWM|1|2|A|1275, 6VWM|1|2|C|1646, 6VWM|1|2|U|1647

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

J4_6VWM_006 not in the Motif Atlas

Homologous match to J4_5J7L_021

Geometric discrepancy: 0.1272

The information below is about J4_5J7L_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.5

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

6VWM|1|2|C|1270
6VWM|1|2|G|1271
6VWM|1|2|A|1272
6VWM|1|2|U|1273
6VWM|1|2|A|1274
6VWM|1|2|A|1275
6VWM|1|2|A|1276
*
6VWM|1|2|U|1294
6VWM|1|2|C|1295
*
6VWM|1|2|G|1645
6VWM|1|2|C|1646
6VWM|1|2|U|1647
6VWM|1|2|U|1648
*
6VWM|1|2|A|2009
6VWM|1|2|G|2010

Current chains

Chain 2

23S ribosomal RNA

Nearby chains

Chain L

50S ribosomal protein L17

Chain Q

50S ribosomal protein L22

Chain Y

50S ribosomal protein L32