J3_9DFD_071

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

CGC*GGACUGC*GAGGAAGGAG

Length

20 nucleotides

Bulged bases

9DFD|1|2a|A|1183

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_9DFD_071 not in the Motif Atlas

Homologous match to J3_5J7L_054

Geometric discrepancy: 0.1244

The information below is about J3_5J7L_054

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17791.2

Basepair signature

cWW-F-cHW-cWW-tWH-cWW-F-tSW-tWS-cSH-cWW-cWW

Number of instances in this motif group

2

Unit IDs

9DFD|1|2a|C|1116
9DFD|1|2a|G|1117
9DFD|1|2a|C|1118
*
9DFD|1|2a|G|1155
9DFD|1|2a|G|1156
9DFD|1|2a|A|1157
9DFD|1|2a|C|1158
9DFD|1|2a|U|1159
9DFD|1|2a|G|1160
9DFD|1|2a|C|1161
*
9DFD|1|2a|G|1175
9DFD|1|2a|A|1176
9DFD|1|2a|G|1177
9DFD|1|2a|G|1178
9DFD|1|2a|A|1179
9DFD|1|2a|A|1180
9DFD|1|2a|G|1181
9DFD|1|2a|G|1182
9DFD|1|2a|A|1183
9DFD|1|2a|G|1184

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2b

30S ribosomal protein S2

Chain 2i

30S ribosomal protein S9

Chain 2n

30S ribosomal protein S14 type Z