IL_4Y4O_311

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

CGGCCAAC*GG

Length

10 nucleotides

Bulged bases (A, C, G, U)

None detected

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

IL_4Y4O_311 not in the Motif Atlas

Homologous match to IL_4LFB_020

Geometric discrepancy: 0.0917

The information below is about IL_4LFB_020

Detailed Annotation

SSU/LSU pseudoknot

Broad Annotation

No text annotation

Motif group

IL_15861.8

Basepair signature

cWW-L-cWW-L-L-R-cSH

Number of instances in this motif group

12

Unit IDs

4Y4O|1|2a|C|504
4Y4O|1|2a|G|505
4Y4O|1|2a|G|506
4Y4O|1|2a|C|507
4Y4O|1|2a|C|508
4Y4O|1|2a|A|509
4Y4O|1|2a|A|510
4Y4O|1|2a|C|511
*
4Y4O|1|2a|G|540
4Y4O|1|2a|G|541

Current chains

Chain 2a

16S Ribosomal RNA

Nearby chains

Chain 2d

30S ribosomal protein S4

Chain 2e

30S ribosomal protein S5

Chain 2l

30S ribosomal protein S12