HL_5NDJ_058

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

CGAUAACG

Length

8 nucleotides

Bulged bases

5NDJ|1|14|U|1005, 5NDJ|1|14|C|1008

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_058 not in the Motif Atlas

Homologous match to HL_7RQB_027

Geometric discrepancy: 0.0904

The information below is about HL_7RQB_027

Detailed Annotation

GNRA

Broad Annotation

No text annotation

Motif group

HL_35490.2

Basepair signature

cWW-tSH-F-F

Number of instances in this motif group

299

Unit IDs

5NDJ|1|14|C|1002
5NDJ|1|14|G|1003
5NDJ|1|14|A|1004
5NDJ|1|14|U|1005
5NDJ|1|14|A|1006
5NDJ|1|14|A|1007
5NDJ|1|14|C|1008
5NDJ|1|14|G|1009

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 1J

5S ribosomal RNA; 5S rRNA

Chain 45

50S ribosomal protein L16