J3_9D7S_043

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

CGAGCUA*UAG*CGAG

Length

14 nucleotides

Bulged bases

9D7S|1|2A|G|686, 9D7S|1|2A|G|792, 9D7S|1|2A|A|793

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_9D7S_043 not in the Motif Atlas

Homologous match to J3_9DFE_007

Geometric discrepancy: 0.0652

The information below is about J3_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_64189.2

Basepair signature

cWW-tWH-cWW-tSW-F-F-cWW

Number of instances in this motif group

7

Unit IDs

9D7S|1|2A|C|683
9D7S|1|2A|G|684
9D7S|1|2A|A|685
9D7S|1|2A|G|686
9D7S|1|2A|C|687
9D7S|1|2A|U|688
9D7S|1|2A|A|689
*
9D7S|1|2A|U|773
9D7S|1|2A|A|774
9D7S|1|2A|G|775
*
9D7S|1|2A|C|791
9D7S|1|2A|G|792
9D7S|1|2A|A|793
9D7S|1|2A|G|794

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 27

50S ribosomal protein L34

Chain 2D

50S ribosomal protein L2