IL_5NDK_315

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

CUGUGAAC*GGGAG

Length

13 nucleotides

Bulged bases

5NDK|1|1H|U|2157

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_315 not in the Motif Atlas

Homologous match to IL_5J7L_330

Geometric discrepancy: 0.4465

The information below is about IL_5J7L_330

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_70923.9

Basepair signature

cWW-tSS-tSH-L-tHS-tHS-cWW

Number of instances in this motif group

27

Unit IDs

5NDK|1|1H|C|2154
5NDK|1|1H|U|2155
5NDK|1|1H|G|2156
5NDK|1|1H|U|2157
5NDK|1|1H|G|2158
5NDK|1|1H|A|2159
5NDK|1|1H|A|2160
5NDK|1|1H|C|2161
*
5NDK|1|1H|G|2180
5NDK|1|1H|G|2181
5NDK|1|1H|G|2182
5NDK|1|1H|A|2183
5NDK|1|1H|G|2184

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains