IL_9D7S_080

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

GA*UACC

Length

6 nucleotides

Bulged bases

9D7S|1|1A|A|2439

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

IL_9D7S_080 not in the Motif Atlas

Homologous match to IL_5J7L_324

Geometric discrepancy: 0.1032

The information below is about IL_5J7L_324

Detailed Annotation

Minor groove platform

Broad Annotation

No text annotation

Motif group

IL_51454.3

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

45

Unit IDs

9D7S|1|1A|G|2070
9D7S|1|1A|A|2071
*
9D7S|1|1A|U|2438
9D7S|1|1A|A|2439
9D7S|1|1A|C|2440
9D7S|1|1A|C|2441

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2

Chain 1x

Transfer RNA; tRNA

Chain 1z

Api Antimicrobial Peptide