IL_5NDJ_136

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

ACGA*UCUAU

Length

9 nucleotides

Bulged bases

5NDJ|1|14|C|2080, 5NDJ|1|14|C|2627, 5NDJ|1|14|U|2628, 5NDJ|1|14|A|2629

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_136 not in the Motif Atlas

Homologous match to IL_7RQB_079

Geometric discrepancy: 0.089

The information below is about IL_7RQB_079

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_01206.1

Basepair signature

cWW-L-cWW

Number of instances in this motif group

2

Unit IDs

5NDJ|1|14|A|2079
5NDJ|1|14|C|2080
5NDJ|1|14|G|2081
5NDJ|1|14|A|2082
*
5NDJ|1|14|U|2626
5NDJ|1|14|C|2627
5NDJ|1|14|U|2628
5NDJ|1|14|A|2629
5NDJ|1|14|U|2630

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L3

Chain A5

50S ribosomal protein L22

Chain J5

50S ribosomal protein L32