IL_5NDK_276

3D structure

PDB id

5NDK (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of aminoglycoside TC007 co-crystallized with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA

Experimental method

X-RAY DIFFRACTION

Resolution

2.95 Å

Loop

Sequence

CGAUG*UAAG

Length

9 nucleotides

Bulged bases

5NDK|1|1H|U|1253

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_5NDK_276 not in the Motif Atlas

Homologous match to IL_7RQB_046

Geometric discrepancy: 0.2101

The information below is about IL_7RQB_046

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_68574.2

Basepair signature

cWW-tHH-tHS-cWW

Number of instances in this motif group

3

Unit IDs

5NDK|1|1H|C|1250
5NDK|1|1H|G|1251
5NDK|1|1H|A|1252
5NDK|1|1H|U|1253
5NDK|1|1H|G|1254
*
5NDK|1|1H|U|1289
5NDK|1|1H|A|1290
5NDK|1|1H|A|1291
5NDK|1|1H|G|1292

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 31

50S ribosomal protein L4

Chain 78

50S ribosomal protein L15