J4_6XQD_022

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

UUG*CG*CCUAAGGUAG*CGAAAA

Length

21 nucleotides

Bulged bases

6XQD|1|2A|A|1971

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

J4_6XQD_022 not in the Motif Atlas

Homologous match to J4_9DFE_008

Geometric discrepancy: 0.0586

The information below is about J4_9DFE_008

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_93343.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

4

Unit IDs

6XQD|1|2A|U|1833
6XQD|1|2A|U|1834
6XQD|1|2A|G|1835
*
6XQD|1|2A|C|1905
6XQD|1|2A|G|1906
*
6XQD|1|2A|C|1924
6XQD|1|2A|C|1925
6XQD|1|2A|U|1926
6XQD|1|2A|A|1927
6XQD|1|2A|A|1928
6XQD|1|2A|G|1929
6XQD|1|2A|G|1930
6XQD|1|2A|U|1931
6XQD|1|2A|A|1932
6XQD|1|2A|G|1933
*
6XQD|1|2A|C|1967
6XQD|1|2A|G|1968
6XQD|1|2A|A|1969
6XQD|1|2A|A|1970
6XQD|1|2A|A|1971
6XQD|1|2A|A|1972

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2D

50S ribosomal protein L2

Chain 2a

Small subunit ribosomal RNA; SSU rRNA

Chain 2x

Transfer RNA; tRNA