IL_8CGD_069

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

UGCAAAC*GGACGUAUA

Length

16 nucleotides

Bulged bases

8CGD|1|a|A|1801, 8CGD|1|a|C|1816, 8CGD|1|a|U|1820

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_069 not in the Motif Atlas

Homologous match to IL_5J7L_313

Geometric discrepancy: 0.0415

The information below is about IL_5J7L_313

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.5

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

8CGD|1|a|U|1798
8CGD|1|a|G|1799
8CGD|1|a|C|1800
8CGD|1|a|A|1801
8CGD|1|a|A|1802
8CGD|1|a|A|1803
8CGD|1|a|C|1804
*
8CGD|1|a|G|1813
8CGD|1|a|G|1814
8CGD|1|a|A|1815
8CGD|1|a|C|1816
8CGD|1|a|G|1817
8CGD|1|a|U|1818
8CGD|1|a|A|1819
8CGD|1|a|U|1820
8CGD|1|a|A|1821

Current chains

Chain a

23S rRNA

Nearby chains

Chain c

Large ribosomal subunit protein uL2