J5_4V53_012

3D structure

PDB id

4V53 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the bacterial ribosome from Escherichia coli in complex with gentamicin.

Experimental method

X-RAY DIFFRACTION

Resolution

3.54 Å

Loop

Sequence

CAAG*CGGACGGG*CAC*GAC*GGCAG

Length

23 nucleotides

Bulged bases

4V53|1|CA|A|109, 4V53|1|CA|C|352, 4V53|1|CA|A|353

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_4V53_012 not in the Motif Atlas

Homologous match to J5_5J7L_003

Geometric discrepancy: 0.0897

The information below is about J5_5J7L_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_59910.6

Basepair signature

cWW-F-tSS-cSS-F-cWW-cWW-cWW-F-F-cWW-F-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

4V53|1|CA|C|58
4V53|1|CA|A|59
4V53|1|CA|A|60
4V53|1|CA|G|61
*
4V53|1|CA|C|106
4V53|1|CA|G|107
4V53|1|CA|G|108
4V53|1|CA|A|109
4V53|1|CA|C|110
4V53|1|CA|G|111
4V53|1|CA|G|112
4V53|1|CA|G|113
*
4V53|1|CA|C|314
4V53|1|CA|A|315
4V53|1|CA|C|316
*
4V53|1|CA|G|337
4V53|1|CA|A|338
4V53|1|CA|C|339
*
4V53|1|CA|G|350
4V53|1|CA|G|351
4V53|1|CA|C|352
4V53|1|CA|A|353
4V53|1|CA|G|354

Current chains

Chain CA

16S rRNA

Nearby chains

Chain CP

30S ribosomal protein S16

Chain CT

30S ribosomal protein S20

Chain DK

50S ribosomal protein L14