J5_6VWN_006

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

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

6VWN|1|2|U|1758, 6VWN|1|2|G|1763

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_6VWN_006 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0848

The information below is about J5_5J7L_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_62523.6

Basepair signature

cWW-F-F-F-cWW-F-F-F-F-F-F-F-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

6VWN|1|2|G|1674
6VWN|1|2|C|1675
6VWN|1|2|A|1676
6VWN|1|2|A|1677
6VWN|1|2|A|1678
6VWN|1|2|A|1679
6VWN|1|2|U|1680
6VWN|1|2|G|1681
6VWN|1|2|G|1682
*
6VWN|1|2|C|1706
6VWN|1|2|G|1707
*
6VWN|1|2|U|1751
6VWN|1|2|C|1752
*
6VWN|1|2|G|1756
6VWN|1|2|A|1757
6VWN|1|2|U|1758
6VWN|1|2|A|1759
6VWN|1|2|C|1760
6VWN|1|2|C|1761
6VWN|1|2|A|1762
6VWN|1|2|G|1763
6VWN|1|2|C|1764
*
6VWN|1|2|G|1988
6VWN|1|2|G|1989
6VWN|1|2|C|1990

Current chains

Chain 2

23S ribosomal RNA

Nearby chains

Chain 1

Small subunit ribosomal RNA; SSU rRNA

Chain B

50S ribosomal protein L3

Chain I

50S ribosomal protein L14

Chain N

50S ribosomal protein L19