IL_3J81_020

3D structure

PDB id

3J81 (explore in PDB, NAKB, or RNA 3D Hub)

Description

CryoEM structure of a partial yeast 48S preinitiation complex

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

UAUCAA*UUUCAACG

Length

14 nucleotides

Bulged bases

3J81|1|2|U|312, 3J81|1|2|C|350

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_3J81_020 not in the Motif Atlas

Homologous match to IL_4V88_402

Geometric discrepancy: 0.153

The information below is about IL_4V88_402

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_45067.5

Basepair signature

cWW-tSH-tSS-tHS-R-cWW-cWW-R

Number of instances in this motif group

16

Unit IDs

3J81|1|2|U|310
3J81|1|2|A|311
3J81|1|2|U|312
3J81|1|2|C|313
3J81|1|2|A|314
3J81|1|2|A|315
*
3J81|1|2|U|347
3J81|1|2|U|348
3J81|1|2|U|349
3J81|1|2|C|350
3J81|1|2|A|351
3J81|1|2|A|352
3J81|1|2|C|353
3J81|1|2|G|354

Current chains

Chain 2

18S rRNA

Nearby chains

Chain I

eS8

Chain L

uS17

Chain X

uS12