HL_5NDJ_082

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

GUGAAGAUGC

Length

10 nucleotides

Bulged bases

5NDJ|1|14|A|2055, 5NDJ|1|14|A|2056, 5NDJ|1|14|G|2057

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_082 not in the Motif Atlas

Homologous match to HL_7RQB_050

Geometric discrepancy: 0.0743

The information below is about HL_7RQB_050

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_90642.6

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

6

Unit IDs

5NDJ|1|14|G|2052
5NDJ|1|14|U|2053
5NDJ|1|14|G|2054
5NDJ|1|14|A|2055
5NDJ|1|14|A|2056
5NDJ|1|14|G|2057
5NDJ|1|14|A|2058
5NDJ|1|14|U|2059
5NDJ|1|14|G|2060
5NDJ|1|14|C|2061

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L3

Chain 95

50S ribosomal protein L21

Chain J5

50S ribosomal protein L32