IL_4V53_258

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

CCAGUAG*CGAACG

Length

13 nucleotides

Bulged bases

None detected

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_4V53_258 not in the Motif Atlas

Homologous match to IL_5J7L_251

Geometric discrepancy: 0.0791

The information below is about IL_5J7L_251

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_26307.2

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

9

Unit IDs

4V53|1|DB|C|239
4V53|1|DB|C|240
4V53|1|DB|A|241
4V53|1|DB|G|242
4V53|1|DB|U|243
4V53|1|DB|A|244
4V53|1|DB|G|245
*
4V53|1|DB|C|253
4V53|1|DB|G|254
4V53|1|DB|A|255
4V53|1|DB|A|256
4V53|1|DB|C|257
4V53|1|DB|G|258

Current chains

Chain DB

23S rRNA

Nearby chains

Chain D3

50S ribosomal protein L35

Chain DL

50S ribosomal protein L15