IL_4V53_318

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

UGCAAAC*GGACGUAUA

Length

16 nucleotides

Bulged bases

4V53|1|DB|A|1801, 4V53|1|DB|C|1816, 4V53|1|DB|U|1820

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_318 not in the Motif Atlas

Homologous match to IL_5J7L_313

Geometric discrepancy: 0.0781

The information below is about IL_5J7L_313

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.5

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

4V53|1|DB|U|1798
4V53|1|DB|G|1799
4V53|1|DB|C|1800
4V53|1|DB|A|1801
4V53|1|DB|A|1802
4V53|1|DB|A|1803
4V53|1|DB|C|1804
*
4V53|1|DB|G|1813
4V53|1|DB|G|1814
4V53|1|DB|A|1815
4V53|1|DB|C|1816
4V53|1|DB|G|1817
4V53|1|DB|U|1818
4V53|1|DB|A|1819
4V53|1|DB|U|1820
4V53|1|DB|A|1821

Current chains

Chain DB

23S rRNA

Nearby chains

Chain CA

Small subunit ribosomal RNA; SSU rRNA

Chain DC

50S ribosomal protein L2