J5_6XQD_018

3D structure

PDB id

6XQD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with sarecycline, UUC-mRNA, and deacylated P-site tRNA at 2.80A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CUGG*CUUG*CUGAAC*GGUAAUAG*CGAG

Length

26 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

J5_6XQD_018 not in the Motif Atlas

Homologous match to J5_4LFB_001

Geometric discrepancy: 0.0846

The information below is about J5_4LFB_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_70703.1

Basepair signature

cWW-F-tWH-F-F-cWW-cWW-cWH-cWH-cWW-tSH-tWH-tHW-tHS-cWW

Number of instances in this motif group

1

Unit IDs

6XQD|1|2a|C|36
6XQD|1|2a|U|37
6XQD|1|2a|G|38
6XQD|1|2a|G|39
*
6XQD|1|2a|C|403
6XQD|1|2a|U|404
6XQD|1|2a|U|405
6XQD|1|2a|G|406
*
6XQD|1|2a|C|436
6XQD|1|2a|U|437
6XQD|1|2a|G|438
6XQD|1|2a|A|439
6XQD|1|2a|A|441
6XQD|1|2a|C|442
*
6XQD|1|2a|G|492
6XQD|1|2a|G|493
6XQD|1|2a|U|494
6XQD|1|2a|A|495
6XQD|1|2a|A|496
6XQD|1|2a|U|498
6XQD|1|2a|A|499
6XQD|1|2a|G|500
*
6XQD|1|2a|C|545
6XQD|1|2a|G|546
6XQD|1|2a|A|547
6XQD|1|2a|G|548

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2l

30S ribosomal protein S12