J3_9B00_037

3D structure

PDB id

9B00 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with berberine analog of chloramphenicol CAM-BER, mRNA, deacylated A- and E-site tRNAphe, and deacylated P-site tRNAmet at 2.80A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

9B00|1|1A|U|504, 9B00|1|1A|G|508

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_9B00_037 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0521

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.1

Basepair signature

cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F

Number of instances in this motif group

9

Unit IDs

9B00|1|1A|G|30
9B00|1|1A|C|31
*
9B00|1|1A|G|474
9B00|1|1A|U|475
9B00|1|1A|G|476
9B00|1|1A|A|477
9B00|1|1A|A|478
9B00|1|1A|A|479
9B00|1|1A|A|480
9B00|1|1A|G|481
9B00|1|1A|A|482
9B00|1|1A|A|483
9B00|1|1A|C|484
*
9B00|1|1A|G|496
9B00|1|1A|A|497
9B00|1|1A|G|498
9B00|1|1A|U|499
9B00|1|1A|G|500
9B00|1|1A|A|501
9B00|1|1A|A|502
9B00|1|1A|A|503
9B00|1|1A|U|504
9B00|1|1A|A|505
9B00|1|1A|G|506
9B00|1|1A|A|507
9B00|1|1A|G|508
9B00|1|1A|C|509
9B00|1|1A|C|510

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1U

50S ribosomal protein L20

Chain 1W

50S ribosomal protein L22

Chain 1Y

50S ribosomal protein L24