IL_5NDK_257

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

CGC*GGAG

Length

7 nucleotides

Bulged bases

5NDK|1|1H|G|979

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_257 not in the Motif Atlas

Geometric match to IL_7RQB_025

Geometric discrepancy: 0.2305

The information below is about IL_7RQB_025

Detailed Annotation

Intercalated cWW

Broad Annotation

Intercalated cWW

Motif group

IL_52767.4

Basepair signature

cWW-L-R-cWW

Number of instances in this motif group

28

Unit IDs

5NDK|1|1H|C|893
5NDK|1|1H|G|894
5NDK|1|1H|C|895
*
5NDK|1|1H|G|978
5NDK|1|1H|G|979
5NDK|1|1H|A|980
5NDK|1|1H|G|981

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain L8

50S ribosomal protein L30