J3_9DFD_033

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

CGUCAG*CGCAACC*GACGACG

Length

20 nucleotides

Bulged bases

None detected

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_033 not in the Motif Atlas

Homologous match to J3_4LFB_007

Geometric discrepancy: 0.0757

The information below is about J3_4LFB_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_01343.1

Basepair signature

cWW-tSS-F-F-tWH-F-F-cWW-F-cWW-F-F-F-F-F

Number of instances in this motif group

2

Unit IDs

9DFD|1|1a|C|1063
9DFD|1|1a|G|1064
9DFD|1|1a|U|1065
9DFD|1|1a|C|1066
9DFD|1|1a|A|1067
9DFD|1|1a|G|1068
*
9DFD|1|1a|C|1107
9DFD|1|1a|G|1108
9DFD|1|1a|C|1109
9DFD|1|1a|A|1110
9DFD|1|1a|A|1111
9DFD|1|1a|C|1112
9DFD|1|1a|C|1113
*
9DFD|1|1a|G|1187
9DFD|1|1a|A|1188
9DFD|1|1a|C|1189
9DFD|1|1a|G|1190
9DFD|1|1a|A|1191
9DFD|1|1a|C|1192
9DFD|1|1a|G|1193

Current chains

Chain 1a

16S Ribosomal RNA

Nearby chains

Chain 1b

30S ribosomal protein S2

Chain 1c

30S ribosomal protein S3

Chain 1e

30S ribosomal protein S5

Chain 1g

30S ribosomal protein S7

Chain 1i

30S ribosomal protein S9

Chain 1j

30S ribosomal protein S10

Chain 1n

30S ribosomal protein S14 type Z