J3_8G2B_064

3D structure

PDB id

8G2B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the A2503-C2,C8-dimethylated Thermus thermophilus 70S ribosome in complex with iboxamycin, mRNA, deacylated A- and E-site tRNAphe, and aminoacylated P-site fMet-tRNAmet at 2.55A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.55 Å

Loop

Sequence

GCC*GCCUAGUGAACC*GAUCAAC

Length

22 nucleotides

Bulged bases

8G2B|1|2A|A|2388, 8G2B|1|2A|U|2390, 8G2B|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_8G2B_064 not in the Motif Atlas

Homologous match to J3_9DFE_015

Geometric discrepancy: 0.058

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

8G2B|1|2A|G|2282
8G2B|1|2A|C|2283
8G2B|1|2A|C|2284
*
8G2B|1|2A|G|2384
8G2B|1|2A|C|2385
8G2B|1|2A|C|2386
8G2B|1|2A|U|2387
8G2B|1|2A|A|2388
8G2B|1|2A|G|2389
8G2B|1|2A|U|2390
8G2B|1|2A|G|2391
8G2B|1|2A|A|2392
8G2B|1|2A|A|2393
8G2B|1|2A|C|2394
8G2B|1|2A|C|2395
*
8G2B|1|2A|G|2421
8G2B|1|2A|A|2422
8G2B|1|2A|U|2423
8G2B|1|2A|C|2424
8G2B|1|2A|A|2425
8G2B|1|2A|A|2426
8G2B|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