J5_4Y4O_011

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

CUAAAC*GGGUCGUG*CGAGUAC*GGAAUCUG*UAAG

Length

33 nucleotides

Bulged bases

4Y4O|1|2A|U|272|||A, 4Y4O|1|2A|U|405

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_31814.2

Basepair signature

cWW-cWW-cSS-tHW-F-tHS-cWW-cWW-cWW-F-F-tHH-cSH-tWH-tWS-tHS-cWW-cWW-cSH

Number of instances in this motif group

3

Unit IDs

4Y4O|1|2A|C|268
4Y4O|1|2A|U|269
4Y4O|1|2A|A|270
4Y4O|1|2A|A|271
4Y4O|1|2A|A|271|||A
4Y4O|1|2A|C|271|||B
*
4Y4O|1|2A|G|271|||V
4Y4O|1|2A|G|271|||W
4Y4O|1|2A|G|271|||X
4Y4O|1|2A|U|271|||Y
4Y4O|1|2A|C|271|||Z
4Y4O|1|2A|G|272
4Y4O|1|2A|U|272|||A
4Y4O|1|2A|G|272|||B
*
4Y4O|1|2A|C|366
4Y4O|1|2A|G|370
4Y4O|1|2A|A|371
4Y4O|1|2A|G|372
4Y4O|1|2A|U|373
4Y4O|1|2A|A|374
4Y4O|1|2A|C|375
*
4Y4O|1|2A|G|399
4Y4O|1|2A|G|400
4Y4O|1|2A|A|401
4Y4O|1|2A|A|402
4Y4O|1|2A|U|403
4Y4O|1|2A|C|404
4Y4O|1|2A|U|405
4Y4O|1|2A|G|406
*
4Y4O|1|2A|U|421
4Y4O|1|2A|A|422
4Y4O|1|2A|A|423
4Y4O|1|2A|G|424

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 21

50S ribosomal protein L28

Chain 2I

50S ribosomal protein L9