IL_5WYJ_040

3D structure

PDB id

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

Description

Cryo-EM structure of the 90S small subunit pre-ribosome (Dhr1-depleted, Enp1-TAP, state 1)

Experimental method

ELECTRON MICROSCOPY

Resolution

8.7 Å

Loop

Sequence

GUA*UUUUC

Length

8 nucleotides

Bulged bases

5WYJ|1|SA|U|260

QA status

Unknown status

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_5WYJ_040 not in the Motif Atlas

Homologous match to IL_4V88_397

Geometric discrepancy: 0.5793

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

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

Current chains

Chain SA

18S ribosomal RNA

Nearby chains

Chain SF

40S ribosomal protein S4-A

Chain SJ

40S ribosomal protein S8-A

Chain U3

Utp20