J5_6XHV_016

3D structure

PDB id

6XHV (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2058-dimethylated Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A- and P-site tRNAs, and deacylated E-site tRNA at 2.40A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.4 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

6XHV|1|2A|U|2076, 6XHV|1|2A|G|2428, 6XHV|1|2A|G|2429, 6XHV|1|2A|A|2430, 6XHV|1|2A|U|2431

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_6XHV_016 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0438

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

4

Unit IDs

6XHV|1|2A|U|2074
6XHV|1|2A|U|2075
6XHV|1|2A|U|2076
6XHV|1|2A|A|2077
*
6XHV|1|2A|U|2243
6XHV|1|2A|U|2244
6XHV|1|2A|U|2245
6XHV|1|2A|G|2246
*
6XHV|1|2A|C|2258
6XHV|1|2A|G|2259
*
6XHV|1|2A|C|2281
6XHV|1|2A|G|2282
*
6XHV|1|2A|C|2427
6XHV|1|2A|G|2428
6XHV|1|2A|G|2429
6XHV|1|2A|A|2430
6XHV|1|2A|U|2431
6XHV|1|2A|A|2432
6XHV|1|2A|A|2433
6XHV|1|2A|A|2434
6XHV|1|2A|A|2435

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 20

50S ribosomal protein L27

Chain 21

50S ribosomal protein L28

Chain 26

50S ribosomal protein L33

Chain 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2y

Transfer RNA; tRNA