IL_5NDK_105

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

CGAUGAAG*UGGAG

Length

13 nucleotides

Bulged bases

5NDK|1|14|U|1259

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_105 not in the Motif Atlas

Homologous match to IL_7RQB_047

Geometric discrepancy: 0.1223

The information below is about IL_7RQB_047

Detailed Annotation

Kink-turn

Broad Annotation

No text annotation

Motif group

IL_70923.2

Basepair signature

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

Number of instances in this motif group

28

Unit IDs

5NDK|1|14|C|1256
5NDK|1|14|G|1257
5NDK|1|14|A|1258
5NDK|1|14|U|1259
5NDK|1|14|G|1260
5NDK|1|14|A|1261
5NDK|1|14|A|1262
5NDK|1|14|G|1263
*
5NDK|1|14|U|1283
5NDK|1|14|G|1284
5NDK|1|14|G|1285
5NDK|1|14|A|1286
5NDK|1|14|G|1287

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 85

50S ribosomal protein L20