IL_5NDJ_099

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 in complex with 70S ribosome from Thermus thermophilus, three tRNAs and mRNA (soaking)

Experimental method

X-RAY DIFFRACTION

Resolution

3.15 Å

Loop

Sequence

CUAAGUG*CUUAAG

Length

13 nucleotides

Bulged bases

5NDJ|1|14|U|1190, 5NDJ|1|14|A|1192

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_5NDJ_099 not in the Motif Atlas

Geometric match to IL_4WF9_039

Geometric discrepancy: 0.1137

The information below is about IL_4WF9_039

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_57188.5

Basepair signature

cWW-tWW-L-tWW-cWW-cSH

Number of instances in this motif group

5

Unit IDs

5NDJ|1|14|C|1066
5NDJ|1|14|U|1067
5NDJ|1|14|A|1068
5NDJ|1|14|A|1069
5NDJ|1|14|G|1070
5NDJ|1|14|U|1071
5NDJ|1|14|G|1072
*
5NDJ|1|14|C|1188
5NDJ|1|14|U|1189
5NDJ|1|14|U|1190
5NDJ|1|14|A|1191
5NDJ|1|14|A|1192
5NDJ|1|14|G|1193

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 15

50S ribosomal protein L13

Chain 59

50S ribosomal protein L6