J3_5NDJ_013

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

GC*GUGAAAAG*CC

Length

12 nucleotides

Bulged bases

None detected

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

J3_5NDJ_013 not in the Motif Atlas

Homologous match to J3_7RQB_001

Geometric discrepancy: 0.0626

The information below is about J3_7RQB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_65070.3

Basepair signature

cWW-tWH-cWW-tSH-F-cWW-F

Number of instances in this motif group

4

Unit IDs

5NDJ|1|14|G|30
5NDJ|1|14|C|31
*
5NDJ|1|14|G|502
5NDJ|1|14|U|503
5NDJ|1|14|G|504
5NDJ|1|14|A|505
5NDJ|1|14|A|506
5NDJ|1|14|A|507
5NDJ|1|14|A|508
5NDJ|1|14|G|509
*
5NDJ|1|14|C|536
5NDJ|1|14|C|537

Current chains

Chain 14

23S ribosomal RNA

Nearby chains

Chain 85

50S ribosomal protein L20

Chain A5

50S ribosomal protein L22

Chain C5

50S ribosomal protein L24