J4_8CGD_005

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

GGUUC*GGUGAG*CU*AAUCGUAC

Length

21 nucleotides

Bulged bases

8CGD|1|a|G|1341

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

J4_8CGD_005 not in the Motif Atlas

Homologous match to J4_5J7L_022

Geometric discrepancy: 0.0489

The information below is about J4_5J7L_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_69051.6

Basepair signature

cWW-F-cWW-F-tHW-F-cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

7

Unit IDs

8CGD|1|a|G|1310
8CGD|1|a|G|1311
8CGD|1|a|U|1312
8CGD|1|a|U|1313
8CGD|1|a|C|1314
*
8CGD|1|a|G|1338
8CGD|1|a|G|1339
8CGD|1|a|U|1340
8CGD|1|a|G|1341
8CGD|1|a|A|1342
8CGD|1|a|G|1343
*
8CGD|1|a|C|1404
8CGD|1|a|U|1405
*
8CGD|1|a|A|1597
8CGD|1|a|A|1598
8CGD|1|a|U|1599
8CGD|1|a|C|1600
8CGD|1|a|G|1601
8CGD|1|a|U|1602
8CGD|1|a|A|1603
8CGD|1|a|C|1604

Current chains

Chain a

23S rRNA

Nearby chains

Chain 1

Large ribosomal subunit protein bL34

Chain s

Large ribosomal subunit protein uL23