J5_8CVL_017

3D structure

PDB id

8CVL (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with mRNA, aminoacylated A-site Phe-NH-tRNAphe, peptidyl P-site fMTHSMRC-NH-tRNAmet, and deacylated E-site tRNAphe at 2.30A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

8CVL|1|2A|U|2076, 8CVL|1|2A|G|2428, 8CVL|1|2A|G|2429, 8CVL|1|2A|A|2430, 8CVL|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_8CVL_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.0474

The information below is about J5_9DFE_007

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_39529.1

Basepair signature

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

Number of instances in this motif group

3

Unit IDs

8CVL|1|2A|U|2074
8CVL|1|2A|U|2075
8CVL|1|2A|U|2076
8CVL|1|2A|A|2077
*
8CVL|1|2A|U|2243
8CVL|1|2A|U|2244
8CVL|1|2A|U|2245
8CVL|1|2A|G|2246
*
8CVL|1|2A|C|2258
8CVL|1|2A|G|2259
*
8CVL|1|2A|C|2281
8CVL|1|2A|G|2282
*
8CVL|1|2A|C|2427
8CVL|1|2A|G|2428
8CVL|1|2A|G|2429
8CVL|1|2A|A|2430
8CVL|1|2A|U|2431
8CVL|1|2A|A|2432
8CVL|1|2A|A|2433
8CVL|1|2A|A|2434
8CVL|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