J6_9D0I_004

3D structure

PDB id

9D0I (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the wild-type Thermus thermophilus 70S ribosome in complex with Se-cresomycin, mRNA, deacylated A-site tRNAphe, aminoacylated P-site fMet-tRNAmet, and deacylated E-site tRNAphe at 2.45A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.45 Å

Loop

Sequence

UUUA*UUUG*CG*CGCC*GCCUAGUGAACC*GAUCAACGGAUAAAA

Length

41 nucleotides

Bulged bases

9D0I|1|2A|U|2076, 9D0I|1|2A|A|2388, 9D0I|1|2A|U|2390, 9D0I|1|2A|G|2428, 9D0I|1|2A|A|2430, 9D0I|1|2A|U|2431, 9D0I|1|2A|A|2434

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

9D0I|1|2A|U|2074
9D0I|1|2A|U|2075
9D0I|1|2A|U|2076
9D0I|1|2A|A|2077
*
9D0I|1|2A|U|2243
9D0I|1|2A|U|2244
9D0I|1|2A|U|2245
9D0I|1|2A|G|2246
*
9D0I|1|2A|C|2258
9D0I|1|2A|G|2259
*
9D0I|1|2A|C|2281
9D0I|1|2A|G|2282
9D0I|1|2A|C|2283
9D0I|1|2A|C|2284
*
9D0I|1|2A|G|2384
9D0I|1|2A|C|2385
9D0I|1|2A|C|2386
9D0I|1|2A|U|2387
9D0I|1|2A|A|2388
9D0I|1|2A|G|2389
9D0I|1|2A|U|2390
9D0I|1|2A|G|2391
9D0I|1|2A|A|2392
9D0I|1|2A|A|2393
9D0I|1|2A|C|2394
9D0I|1|2A|C|2395
*
9D0I|1|2A|G|2421
9D0I|1|2A|A|2422
9D0I|1|2A|U|2423
9D0I|1|2A|C|2424
9D0I|1|2A|A|2425
9D0I|1|2A|A|2426
9D0I|1|2A|C|2427
9D0I|1|2A|G|2428
9D0I|1|2A|G|2429
9D0I|1|2A|A|2430
9D0I|1|2A|U|2431
9D0I|1|2A|A|2432
9D0I|1|2A|A|2433
9D0I|1|2A|A|2434
9D0I|1|2A|A|2435

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 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2y

Transfer RNA; tRNA