J5_4V53_013

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

CGAUGAAG*CGAAUG*CA*UAU*AGG

Length

22 nucleotides

Bulged bases

4V53|1|DB|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_4V53_013 not in the Motif Atlas

Homologous match to J5_5J7L_013

Geometric discrepancy: 0.0732

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

4V53|1|DB|C|47
4V53|1|DB|G|48
4V53|1|DB|A|49
4V53|1|DB|U|50
4V53|1|DB|G|51
4V53|1|DB|A|52
4V53|1|DB|A|53
4V53|1|DB|G|54
*
4V53|1|DB|C|116
4V53|1|DB|G|117
4V53|1|DB|A|118
4V53|1|DB|A|119
4V53|1|DB|U|120
4V53|1|DB|G|121
*
4V53|1|DB|C|130
4V53|1|DB|A|131
*
4V53|1|DB|U|148
4V53|1|DB|A|149
4V53|1|DB|U|150
*
4V53|1|DB|A|176
4V53|1|DB|G|177
4V53|1|DB|G|178

Current chains

Chain DB

23S rRNA

Nearby chains

Chain D2

50S ribosomal protein L34