J5_8G2D_017

3D structure

PDB id

8G2D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with tylosin, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.7 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

8G2D|1|2A|U|2076, 8G2D|1|2A|G|2428, 8G2D|1|2A|G|2429, 8G2D|1|2A|A|2430, 8G2D|1|2A|U|2431, 8G2D|1|2A|A|2434

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_8G2D_017 not in the Motif Atlas

Homologous match to J5_9DFE_007

Geometric discrepancy: 0.051

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

8G2D|1|2A|U|2074
8G2D|1|2A|U|2075
8G2D|1|2A|U|2076
8G2D|1|2A|A|2077
*
8G2D|1|2A|U|2243
8G2D|1|2A|U|2244
8G2D|1|2A|U|2245
8G2D|1|2A|G|2246
*
8G2D|1|2A|C|2258
8G2D|1|2A|G|2259
*
8G2D|1|2A|C|2281
8G2D|1|2A|G|2282
*
8G2D|1|2A|C|2427
8G2D|1|2A|G|2428
8G2D|1|2A|G|2429
8G2D|1|2A|A|2430
8G2D|1|2A|U|2431
8G2D|1|2A|A|2432
8G2D|1|2A|A|2433
8G2D|1|2A|A|2434
8G2D|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