IL_5NDK_138

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

GUG*CC

Length

5 nucleotides

Bulged bases

5NDK|1|14|U|2093

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_138 not in the Motif Atlas

Homologous match to IL_7RQB_080

Geometric discrepancy: 0.07

The information below is about IL_7RQB_080

Detailed Annotation

Single bulged U

Broad Annotation

No text annotation

Motif group

IL_83039.16

Basepair signature

cWW-L-cWW

Number of instances in this motif group

116

Unit IDs

5NDK|1|14|G|2092
5NDK|1|14|U|2093
5NDK|1|14|G|2094
*
5NDK|1|14|C|2457
5NDK|1|14|C|2458

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 35

50S ribosomal protein L15

Chain 39

50S ribosomal protein L4