HL_5NDJ_099

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

GAAGACCAC

Length

9 nucleotides

Bulged bases

5NDJ|1|14|A|2833

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_099 not in the Motif Atlas

Homologous match to HL_7RQB_068

Geometric discrepancy: 0.0705

The information below is about HL_7RQB_068

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_64690.1

Basepair signature

cWW-cSW-F-F-F-F

Number of instances in this motif group

9

Unit IDs

5NDJ|1|14|G|2832
5NDJ|1|14|A|2833
5NDJ|1|14|A|2834
5NDJ|1|14|G|2835
5NDJ|1|14|A|2836
5NDJ|1|14|C|2837
5NDJ|1|14|C|2838
5NDJ|1|14|A|2839
5NDJ|1|14|C|2840

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L3

Chain 55

50S ribosomal protein L17

Chain 75

50S ribosomal protein L19