J4_7RQ9_016

3D structure

PDB id

7RQ9 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAs, and aminoacylated P-site tRNA at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

A(4SU)AG*CAG*CGU(7MG)UCC*GU

Length

16 nucleotides

Bulged bases

7RQ9|1|1y|4SU|8, 7RQ9|1|1y|U|47, 7RQ9|1|1y|C|48

QA status

Modified nucleotides: 4SU, 7MG

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

J4_7RQ9_016 not in the Motif Atlas

Homologous match to J4_3WQY_001

Geometric discrepancy: 0.2455

The information below is about J4_3WQY_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_70449.29

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

54

Unit IDs

7RQ9|1|1y|A|7
7RQ9|1|1y|4SU|8
7RQ9|1|1y|A|9
7RQ9|1|1y|G|10
*
7RQ9|1|1y|C|25
7RQ9|1|1y|A|26
7RQ9|1|1y|G|27
*
7RQ9|1|1y|C|43
7RQ9|1|1y|G|44
7RQ9|1|1y|U|45
7RQ9|1|1y|7MG|46
7RQ9|1|1y|U|47
7RQ9|1|1y|C|48
7RQ9|1|1y|C|49
*
7RQ9|1|1y|G|65
7RQ9|1|1y|U|66

Current chains

Chain 1y

E-site tRNA

Nearby chains

Chain 16

50S ribosomal protein L33

Chain 1g

30S ribosomal protein S7