J7_4Y4O_004

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

CGAAAU*AG*UGAG*CGAGCGC*GAGAC*GG*CGGUAG

Length

32 nucleotides

Bulged bases

4Y4O|1|2A|A|945, 4Y4O|1|2A|C|975

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

J7_21233.2

Basepair signature

cWW-tSH-tHW-cSH-tHH-tHS-F-cWW-cWW-cWW-cWW-F-tSH-cWW-tHS-F-cWW

Number of instances in this motif group

3

Unit IDs

4Y4O|1|2A|C|817
4Y4O|1|2A|G|818
4Y4O|1|2A|A|819
4Y4O|1|2A|A|820
4Y4O|1|2A|A|821
4Y4O|1|2A|U|822
*
4Y4O|1|2A|A|835
4Y4O|1|2A|G|836
*
4Y4O|1|2A|U|943
4Y4O|1|2A|G|944
4Y4O|1|2A|A|945
4Y4O|1|2A|G|946
*
4Y4O|1|2A|C|971
4Y4O|1|2A|G|972
4Y4O|1|2A|A|973
4Y4O|1|2A|G|974
4Y4O|1|2A|C|975
4Y4O|1|2A|G|975|||A
4Y4O|1|2A|C|976
*
4Y4O|1|2A|G|987
4Y4O|1|2A|A|988
4Y4O|1|2A|G|989
4Y4O|1|2A|A|990
4Y4O|1|2A|C|991
*
4Y4O|1|2A|G|1163
4Y4O|1|2A|G|1164
*
4Y4O|1|2A|C|1185
4Y4O|1|2A|G|1186
4Y4O|1|2A|G|1187
4Y4O|1|2A|U|1188
4Y4O|1|2A|A|1189
4Y4O|1|2A|G|1190

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 23

50S ribosomal protein L30

Chain 28

50S ribosomal protein L35

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2P

50S ribosomal protein L15

Chain 2U

50S ribosomal protein L20

Chain 2V

50S ribosomal protein L21