HL_5NDJ_233

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

CCUCCGGG

Length

8 nucleotides

Bulged bases

5NDJ|1|1H|C|2170, 5NDJ|1|1H|C|2171, 5NDJ|1|1H|G|2172

QA status

Unknown status

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_233 not in the Motif Atlas

Geometric match to HL_1KH6_003

Geometric discrepancy: 0.3841

The information below is about HL_1KH6_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_27483.1

Basepair signature

cWW-F

Number of instances in this motif group

2

Unit IDs

5NDJ|1|1H|C|2167
5NDJ|1|1H|C|2168
5NDJ|1|1H|U|2169
5NDJ|1|1H|C|2170
5NDJ|1|1H|C|2171
5NDJ|1|1H|G|2172
5NDJ|1|1H|G|2173
5NDJ|1|1H|G|2174

Current chains

Chain 1H

23S ribosomal RNA

Nearby chains

Chain 2I

30S ribosomal protein S11

Chain V1

Transfer RNA; tRNA