J4_9D7S_022

3D structure

PDB id

9D7S (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Api antimicrobial peptide, mRNA, A-site release factor 1, and deacylated P-site and E-site tRNAphe at 2.85A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.85 Å

Loop

Sequence

UUG*CG*CCUAAGGUAG*CGAAAA

Length

21 nucleotides

Bulged bases

9D7S|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_9D7S_022 not in the Motif Atlas

Homologous match to J4_9DFE_008

Geometric discrepancy: 0.0642

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

9D7S|1|2A|U|1833
9D7S|1|2A|U|1834
9D7S|1|2A|G|1835
*
9D7S|1|2A|C|1905
9D7S|1|2A|G|1906
*
9D7S|1|2A|C|1924
9D7S|1|2A|C|1925
9D7S|1|2A|U|1926
9D7S|1|2A|A|1927
9D7S|1|2A|A|1928
9D7S|1|2A|G|1929
9D7S|1|2A|G|1930
9D7S|1|2A|U|1931
9D7S|1|2A|A|1932
9D7S|1|2A|G|1933
*
9D7S|1|2A|C|1967
9D7S|1|2A|G|1968
9D7S|1|2A|A|1969
9D7S|1|2A|A|1970
9D7S|1|2A|A|1971
9D7S|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