IL_4Y4O_069

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

UGCGAAC*GGAGGUAUA

Length

16 nucleotides

Bulged bases

4Y4O|1|1A|G|1832, 4Y4O|1|1A|G|1847, 4Y4O|1|1A|U|1851

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_069 not in the Motif Atlas

Homologous match to IL_7RQB_070

Geometric discrepancy: 0.0259

The information below is about IL_7RQB_070

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_17069.3

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

4Y4O|1|1A|U|1829
4Y4O|1|1A|G|1830
4Y4O|1|1A|C|1831
4Y4O|1|1A|G|1832
4Y4O|1|1A|A|1833
4Y4O|1|1A|A|1834
4Y4O|1|1A|C|1835
*
4Y4O|1|1A|G|1844
4Y4O|1|1A|G|1845
4Y4O|1|1A|A|1846
4Y4O|1|1A|G|1847
4Y4O|1|1A|G|1848
4Y4O|1|1A|U|1849
4Y4O|1|1A|A|1850
4Y4O|1|1A|U|1851
4Y4O|1|1A|A|1852

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 1D

50S ribosomal protein L2

Chain 1a

Small subunit ribosomal RNA; SSU rRNA