IL_5NDK_194

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

CGGCCAAC*GG

Length

10 nucleotides

Bulged bases

None detected

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_194 not in the Motif Atlas

Homologous match to IL_5J7L_024

Geometric discrepancy: 0.0712

The information below is about IL_5J7L_024

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_41203.4

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

11

Unit IDs

5NDK|1|1G|C|1133
5NDK|1|1G|G|1134
5NDK|1|1G|G|1135
5NDK|1|1G|C|1136
5NDK|1|1G|C|1137
5NDK|1|1G|A|1138
5NDK|1|1G|A|1139
5NDK|1|1G|C|1140
*
5NDK|1|1G|G|1169
5NDK|1|1G|G|1170

Current chains

Chain 1G

16S ribosomal RNA

Nearby chains

Chain 32

30S ribosomal protein S4

Chain 3A

30S ribosomal protein S12