IL_5LYB_380

3D structure

PDB id

5LYB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the S.cerevisiae 80S ribosome in complex with the A-site bound aminoacyl-tRNA analog ACCPmn

Experimental method

X-RAY DIFFRACTION

Resolution

3.25 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

5LYB|1|6|U|260

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_5LYB_380 not in the Motif Atlas

Homologous match to IL_4V88_397

Geometric discrepancy: 0.0807

The information below is about IL_4V88_397

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

5LYB|1|6|G|204
5LYB|1|6|U|205
5LYB|1|6|A|206
*
5LYB|1|6|U|259
5LYB|1|6|U|260
5LYB|1|6|U|261
5LYB|1|6|U|262
5LYB|1|6|C|263

Current chains

Chain 6

18S rRNA

Nearby chains

Chain s4

40S ribosomal protein S4-A

Chain s8

40S ribosomal protein S8-A