J5_9DFC_001

3D structure

PDB id

9DFC (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, mRNA, aminoacylated A-site Phe-tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.50A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.5 Å

Loop

Sequence

CGAUGAAG*CGAAUG*CG*CAC*GGG

Length

22 nucleotides

Bulged bases

9DFC|1|1A|U|50

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

J5_9DFC_001 not in the Motif Atlas

Homologous match to J5_9DFE_001

Geometric discrepancy: 0.0567

The information below is about J5_9DFE_001

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_01737.2

Basepair signature

cWW-F-cWW-F-cWW-tSH-tHH-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

5

Unit IDs

9DFC|1|1A|C|47
9DFC|1|1A|G|48
9DFC|1|1A|A|49
9DFC|1|1A|U|50
9DFC|1|1A|G|51
9DFC|1|1A|A|52
9DFC|1|1A|A|53
9DFC|1|1A|G|54
*
9DFC|1|1A|C|116
9DFC|1|1A|G|117
9DFC|1|1A|A|118
9DFC|1|1A|A|119
9DFC|1|1A|U|120
9DFC|1|1A|G|121
*
9DFC|1|1A|C|130
9DFC|1|1A|G|131
*
9DFC|1|1A|C|148
9DFC|1|1A|A|149
9DFC|1|1A|C|150
*
9DFC|1|1A|G|176
9DFC|1|1A|G|177
9DFC|1|1A|G|178

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 17

50S ribosomal protein L34

Chain 1X

50S ribosomal protein L23