J5_4Y4O_017

3D structure

PDB id

4Y4O (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome with rRNA modifications and bound to protein Y (YfiA) at 2.3A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.3 Å

Loop

Sequence

UUUA*UUUG*CG*CG*CGGAUAAAA

Length

21 nucleotides

Bulged bases

4Y4O|1|2A|U|2076, 4Y4O|1|2A|G|2428, 4Y4O|1|2A|G|2429, 4Y4O|1|2A|A|2430, 4Y4O|1|2A|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

J5_71788.2

Basepair signature

cWW-cWH-cWH-F-cWW-F-F-cWW-F-cWW-cWW

Number of instances in this motif group

5

Unit IDs

4Y4O|1|2A|U|2074
4Y4O|1|2A|U|2075
4Y4O|1|2A|U|2076
4Y4O|1|2A|A|2077
*
4Y4O|1|2A|U|2243
4Y4O|1|2A|U|2244
4Y4O|1|2A|U|2245
4Y4O|1|2A|G|2246
*
4Y4O|1|2A|C|2258
4Y4O|1|2A|G|2259
*
4Y4O|1|2A|C|2281
4Y4O|1|2A|G|2282
*
4Y4O|1|2A|C|2427
4Y4O|1|2A|G|2428
4Y4O|1|2A|G|2429
4Y4O|1|2A|A|2430
4Y4O|1|2A|U|2431
4Y4O|1|2A|A|2432
4Y4O|1|2A|A|2433
4Y4O|1|2A|A|2434
4Y4O|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 2D

50S ribosomal protein L2

Chain 2P

50S ribosomal protein L15

Chain 2Z

50S ribosomal protein L25