J6_4V4Y_002

3D structure

PDB id

4V4Y (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the 70S Thermus thermophilus ribosome with translocated and rotated Shine-Dalgarno Duplex.

Experimental method

X-RAY DIFFRACTION

Resolution

5.5 Å

Loop

Sequence

UUUA*UUUG*CG*CGCC*GCCUAGUGAACC*GAUCAACGGAUAAAA

Length

41 nucleotides

Bulged bases

4V4Y|1|BA|U|2075, 4V4Y|1|BA|U|2076, 4V4Y|1|BA|A|2388, 4V4Y|1|BA|A|2430, 4V4Y|1|BA|U|2431

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

4V4Y|1|BA|U|2074
4V4Y|1|BA|U|2075
4V4Y|1|BA|U|2076
4V4Y|1|BA|A|2077
*
4V4Y|1|BA|U|2243
4V4Y|1|BA|U|2244
4V4Y|1|BA|U|2245
4V4Y|1|BA|G|2246
*
4V4Y|1|BA|C|2258
4V4Y|1|BA|G|2259
*
4V4Y|1|BA|C|2281
4V4Y|1|BA|G|2282
4V4Y|1|BA|C|2283
4V4Y|1|BA|C|2284
*
4V4Y|1|BA|G|2384
4V4Y|1|BA|C|2385
4V4Y|1|BA|C|2386
4V4Y|1|BA|U|2387
4V4Y|1|BA|A|2388
4V4Y|1|BA|G|2389
4V4Y|1|BA|U|2390
4V4Y|1|BA|G|2391
4V4Y|1|BA|A|2392
4V4Y|1|BA|A|2393
4V4Y|1|BA|C|2394
4V4Y|1|BA|C|2395
*
4V4Y|1|BA|G|2421
4V4Y|1|BA|A|2422
4V4Y|1|BA|U|2423
4V4Y|1|BA|C|2424
4V4Y|1|BA|A|2425
4V4Y|1|BA|A|2426
4V4Y|1|BA|C|2427
4V4Y|1|BA|G|2428
4V4Y|1|BA|G|2429
4V4Y|1|BA|A|2430
4V4Y|1|BA|U|2431
4V4Y|1|BA|A|2432
4V4Y|1|BA|A|2433
4V4Y|1|BA|A|2434
4V4Y|1|BA|A|2435

Current chains

Chain BA

23S ribosomal RNA

Nearby chains

Chain AD

Transfer RNA; tRNA

Chain B3

50S ribosomal protein L31

Chain B5

50S ribosomal protein L33

Chain B7

50S ribosomal protein L35

Chain BD

50S ribosomal protein L2

Chain BO

50S ribosomal protein L15

Chain BZ

Ribosomal protein L27