J5_6VWM_003

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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

6VWM|1|2|U|50

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

J5_6VWM_003 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.1108

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

6VWM|1|2|C|47
6VWM|1|2|G|48
6VWM|1|2|A|49
6VWM|1|2|U|50
6VWM|1|2|G|51
6VWM|1|2|A|52
6VWM|1|2|A|53
6VWM|1|2|G|54
*
6VWM|1|2|C|116
6VWM|1|2|G|117
6VWM|1|2|A|118
6VWM|1|2|A|119
6VWM|1|2|U|120
6VWM|1|2|G|121
*
6VWM|1|2|C|130
6VWM|1|2|A|131
*
6VWM|1|2|U|148
6VWM|1|2|A|149
6VWM|1|2|U|150
*
6VWM|1|2|A|176
6VWM|1|2|G|177
6VWM|1|2|G|178

Current chains

Chain 2

23S ribosomal RNA

Nearby chains

Chain AA

50S ribosomal protein L34