J5_6YS3_004

3D structure

PDB id

6YS3 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the 50S ribosomal subunit at 2.58 Angstroms with modeled GBC SecM peptide

Experimental method

ELECTRON MICROSCOPY

Resolution

2.58 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

6YS3|1|b|U|1760, 6YS3|1|b|G|1765

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_6YS3_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0705

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

6YS3|1|b|G|1676
6YS3|1|b|C|1677
6YS3|1|b|A|1678
6YS3|1|b|A|1679
6YS3|1|b|A|1680
6YS3|1|b|A|1681
6YS3|1|b|U|1682
6YS3|1|b|G|1683
6YS3|1|b|G|1684
*
6YS3|1|b|C|1708
6YS3|1|b|G|1709
*
6YS3|1|b|U|1753
6YS3|1|b|C|1754
*
6YS3|1|b|G|1758
6YS3|1|b|A|1759
6YS3|1|b|U|1760
6YS3|1|b|A|1761
6YS3|1|b|C|1762
6YS3|1|b|C|1763
6YS3|1|b|A|1764
6YS3|1|b|G|1765
6YS3|1|b|C|1766
*
6YS3|1|b|G|1992
6YS3|1|b|G|1993
6YS3|1|b|C|1994

Current chains

Chain b

23S rRNA

Nearby chains

Chain d

50S ribosomal protein L3

Chain k

50S ribosomal protein L14

Chain p

50S ribosomal protein L19