J3_8UD6_056

3D structure

PDB id

8UD6 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type 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

2.7 Å

Loop

Sequence

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

8UD6|1|2A|U|504, 8UD6|1|2A|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_8UD6_056 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.0499

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

8UD6|1|2A|G|30
8UD6|1|2A|C|31
*
8UD6|1|2A|G|474
8UD6|1|2A|U|475
8UD6|1|2A|G|476
8UD6|1|2A|A|477
8UD6|1|2A|A|478
8UD6|1|2A|A|479
8UD6|1|2A|A|480
8UD6|1|2A|G|481
8UD6|1|2A|A|482
8UD6|1|2A|A|483
8UD6|1|2A|C|484
*
8UD6|1|2A|G|496
8UD6|1|2A|A|497
8UD6|1|2A|G|498
8UD6|1|2A|U|499
8UD6|1|2A|G|500
8UD6|1|2A|A|501
8UD6|1|2A|A|502
8UD6|1|2A|A|503
8UD6|1|2A|U|504
8UD6|1|2A|A|505
8UD6|1|2A|G|506
8UD6|1|2A|A|507
8UD6|1|2A|G|508
8UD6|1|2A|C|509
8UD6|1|2A|C|510

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2U

50S ribosomal protein L20

Chain 2W

50S ribosomal protein L22

Chain 2Y

50S ribosomal protein L24