J3_8UD7_037

3D structure

PDB id

8UD7 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2058-N6-dimethylated Thermus thermophilus 70S ribosome in complex with cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.70A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

8UD7|1|1A|U|504, 8UD7|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_8UD7_037 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0392

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_92134.2

Basepair signature

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

Number of instances in this motif group

6

Unit IDs

8UD7|1|1A|G|30
8UD7|1|1A|C|31
*
8UD7|1|1A|G|474
8UD7|1|1A|U|475
8UD7|1|1A|G|476
8UD7|1|1A|A|477
8UD7|1|1A|A|478
8UD7|1|1A|A|479
8UD7|1|1A|A|480
8UD7|1|1A|G|481
8UD7|1|1A|A|482
8UD7|1|1A|A|483
8UD7|1|1A|C|484
*
8UD7|1|1A|G|496
8UD7|1|1A|A|497
8UD7|1|1A|G|498
8UD7|1|1A|U|499
8UD7|1|1A|G|500
8UD7|1|1A|A|501
8UD7|1|1A|A|502
8UD7|1|1A|A|503
8UD7|1|1A|U|504
8UD7|1|1A|A|505
8UD7|1|1A|G|506
8UD7|1|1A|A|507
8UD7|1|1A|G|508
8UD7|1|1A|C|509
8UD7|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