J3_8UD7_063

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

GCC*GCCUAGUGAACC*GAUCAAC

Length

22 nucleotides

Bulged bases

8UD7|1|2A|A|2388, 8UD7|1|2A|A|2426

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_063 not in the Motif Atlas

Homologous match to J3_9DFE_015

Geometric discrepancy: 0.0584

The information below is about J3_9DFE_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_20992.1

Basepair signature

cWW-F-F-cWW-tHW-tHW-F-cWW-F-F-F-F-F

Number of instances in this motif group

5

Unit IDs

8UD7|1|2A|G|2282
8UD7|1|2A|C|2283
8UD7|1|2A|C|2284
*
8UD7|1|2A|G|2384
8UD7|1|2A|C|2385
8UD7|1|2A|C|2386
8UD7|1|2A|U|2387
8UD7|1|2A|A|2388
8UD7|1|2A|G|2389
8UD7|1|2A|U|2390
8UD7|1|2A|G|2391
8UD7|1|2A|A|2392
8UD7|1|2A|A|2393
8UD7|1|2A|C|2394
8UD7|1|2A|C|2395
*
8UD7|1|2A|G|2421
8UD7|1|2A|A|2422
8UD7|1|2A|U|2423
8UD7|1|2A|C|2424
8UD7|1|2A|A|2425
8UD7|1|2A|A|2426
8UD7|1|2A|C|2427

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 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15

Chain 2y

Transfer RNA; tRNA