IL_9D7S_340

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

(5MC)AC*GAAG

Length

7 nucleotides

Bulged bases

9D7S|1|2a|A|1492, 9D7S|1|2a|A|1493

QA status

Modified nucleotides: 5MC

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_340 not in the Motif Atlas

Geometric match to IL_2O3X_003

Geometric discrepancy: 0.2151

The information below is about IL_2O3X_003

Detailed Annotation

Decoding loop related

Broad Annotation

Decoding loop related

Motif group

IL_31737.3

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

9D7S|1|2a|5MC|1407
9D7S|1|2a|A|1408
9D7S|1|2a|C|1409
*
9D7S|1|2a|G|1491
9D7S|1|2a|A|1492
9D7S|1|2a|A|1493
9D7S|1|2a|G|1494

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2A

Large subunit ribosomal RNA; LSU rRNA

Chain 2l

30S ribosomal protein S12

Chain 2v

PHE-Stop mRNA

Chain 2w

Peptide chain release factor 1