J5_8CGD_001

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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

8CGD|1|a|U|50

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_001 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.0403

The information below is about J5_5J7L_013

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

8CGD|1|a|C|47
8CGD|1|a|G|48
8CGD|1|a|A|49
8CGD|1|a|U|50
8CGD|1|a|G|51
8CGD|1|a|A|52
8CGD|1|a|A|53
8CGD|1|a|G|54
*
8CGD|1|a|C|116
8CGD|1|a|G|117
8CGD|1|a|A|118
8CGD|1|a|A|119
8CGD|1|a|U|120
8CGD|1|a|G|121
*
8CGD|1|a|C|130
8CGD|1|a|A|131
*
8CGD|1|a|U|148
8CGD|1|a|A|149
8CGD|1|a|U|150
*
8CGD|1|a|A|176
8CGD|1|a|G|177
8CGD|1|a|G|178

Current chains

Chain a

23S rRNA

Nearby chains

Chain 1

Large ribosomal subunit protein bL34