J5_8CGD_004

3D structure

PDB id

8CGD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Clindamycin bound to the 50S subunit

Experimental method

ELECTRON MICROSCOPY

Resolution

1.98 Å

Loop

Sequence

GCAAAAUGG*CG*UC*GAUACCAGC*GGC

Length

25 nucleotides

Bulged bases

8CGD|1|a|U|1758, 8CGD|1|a|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_8CGD_004 not in the Motif Atlas

Homologous match to J5_5J7L_016

Geometric discrepancy: 0.0416

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

8CGD|1|a|G|1674
8CGD|1|a|C|1675
8CGD|1|a|A|1676
8CGD|1|a|A|1677
8CGD|1|a|A|1678
8CGD|1|a|A|1679
8CGD|1|a|U|1680
8CGD|1|a|G|1681
8CGD|1|a|G|1682
*
8CGD|1|a|C|1706
8CGD|1|a|G|1707
*
8CGD|1|a|U|1751
8CGD|1|a|C|1752
*
8CGD|1|a|G|1756
8CGD|1|a|A|1757
8CGD|1|a|U|1758
8CGD|1|a|A|1759
8CGD|1|a|C|1760
8CGD|1|a|C|1761
8CGD|1|a|A|1762
8CGD|1|a|G|1763
8CGD|1|a|C|1764
*
8CGD|1|a|G|1988
8CGD|1|a|G|1989
8CGD|1|a|C|1990

Current chains

Chain a

23S rRNA

Nearby chains

Chain d

Large ribosomal subunit protein uL3

Chain j

Large ribosomal subunit protein uL14

Chain o

Large ribosomal subunit protein bL19