HL_5NDJ_195

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

CGUCCACAG

Length

9 nucleotides

Bulged bases

5NDJ|1|1H|A|2491, 5NDJ|1|1H|C|2492

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

HL_5NDJ_195 not in the Motif Atlas

Geometric match to HL_361D_002

Geometric discrepancy: 0.3644

The information below is about HL_361D_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_13963.3

Basepair signature

cWW-F-F

Number of instances in this motif group

4

Unit IDs

5NDJ|1|1H|C|2486
5NDJ|1|1H|G|2487
5NDJ|1|1H|U|2488
5NDJ|1|1H|C|2489
5NDJ|1|1H|C|2490
5NDJ|1|1H|A|2491
5NDJ|1|1H|C|2492
5NDJ|1|1H|A|2493
5NDJ|1|1H|G|2494

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 51

50S ribosomal protein L6

Chain 88

50S ribosomal protein L16

Chain W1

Transfer RNA; tRNA