HL_9DFD_009

3D structure

PDB id

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

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with lasso peptide lariocidin B, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.60A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.6 Å

Loop

Sequence

UUGGGAAG

Length

8 nucleotides

Bulged bases

9DFD|1|1A|A|311

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

HL_9DFD_009 not in the Motif Atlas

Homologous match to HL_9DFE_009

Geometric discrepancy: 0.0611

The information below is about HL_9DFE_009

Detailed Annotation

T-loop with 1 bulged base

Broad Annotation

T-loop

Motif group

HL_13999.3

Basepair signature

cWW-tWH-F-F-F

Number of instances in this motif group

23

Unit IDs

9DFD|1|1A|U|305
9DFD|1|1A|U|306
9DFD|1|1A|G|307
9DFD|1|1A|G|308
9DFD|1|1A|G|309
9DFD|1|1A|A|310
9DFD|1|1A|A|311
9DFD|1|1A|G|312

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1Y

50S ribosomal protein L24