IL_8CGD_016

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

GAAAC*GAGAUAGC

Length

13 nucleotides

Bulged bases

8CGD|1|a|G|801, 8CGD|1|a|G|805

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

IL_8CGD_016 not in the Motif Atlas

Homologous match to IL_7RQB_018

Geometric discrepancy: 0.0491

The information below is about IL_7RQB_018

Detailed Annotation

tHW-tHW cross-strand stack

Broad Annotation

No text annotation

Motif group

IL_17470.6

Basepair signature

cWW-tWW-L-R-tWH-L-cWW

Number of instances in this motif group

7

Unit IDs

8CGD|1|a|G|674
8CGD|1|a|A|675
8CGD|1|a|A|676
8CGD|1|a|A|677
8CGD|1|a|C|678
*
8CGD|1|a|G|799
8CGD|1|a|A|800
8CGD|1|a|G|801
8CGD|1|a|A|802
8CGD|1|a|U|803
8CGD|1|a|A|804
8CGD|1|a|G|805
8CGD|1|a|C|806

Current chains

Chain a

23S rRNA

Nearby chains

Chain e

Large ribosomal subunit protein uL4

Chain k

50S ribosomal protein L15