HL_5NDJ_084

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

CGGAUG

Length

6 nucleotides

Bulged bases

5NDJ|1|14|G|2230, 5NDJ|1|14|G|2231, 5NDJ|1|14|U|2233

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_084 not in the Motif Atlas

Homologous match to HL_7RQB_052

Geometric discrepancy: 0.5827

The information below is about HL_7RQB_052

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_98426.1

Basepair signature

cWW-F

Number of instances in this motif group

6

Unit IDs

5NDJ|1|14|C|2229
5NDJ|1|14|G|2230
5NDJ|1|14|G|2231
5NDJ|1|14|A|2232
5NDJ|1|14|U|2233
5NDJ|1|14|G|2234

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 19

50S ribosomal protein L2

Chain 3E

30S ribosomal protein S4

Chain F5

50S ribosomal protein L28