HL_4V53_169

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

GUGAAAAGC

Length

9 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

HL_4V53_169 not in the Motif Atlas

Homologous match to HL_5J7L_165

Geometric discrepancy: 0.1007

The information below is about HL_5J7L_165

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.8

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

140

Unit IDs

4V53|1|DB|G|1281
4V53|1|DB|U|1282
4V53|1|DB|G|1283
4V53|1|DB|A|1284
4V53|1|DB|A|1285
4V53|1|DB|A|1286
4V53|1|DB|A|1287
4V53|1|DB|G|1288
4V53|1|DB|C|1289

Current chains

Chain DB

23S rRNA

Nearby chains

Chain D0

50S ribosomal protein L32

Chain DN

50S ribosomal protein L17

Chain DS

50S ribosomal protein L22