IL_9Q1S_190

3D structure

PDB id

9Q1S (explore in PDB, NAKB, or RNA 3D Hub)

Description

NediV IRES (P site) in complex with Rabbit 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

3 Å

Loop

Sequence

UAUCAA*UGACCACG

Length

14 nucleotides

Bulged bases

9Q1S|1|9|U|361, 9Q1S|1|9|C|399, 9Q1S|1|9|C|400

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_9Q1S_190 not in the Motif Atlas

Homologous match to IL_9PN5_159

Geometric discrepancy: 0.1428

The information below is about IL_9PN5_159

Detailed Annotation

Kink-turn with non-sequential stacking

Broad Annotation

Kink-turn

Motif group

IL_46174.7

Basepair signature

cWW-cSS-tSS-tSH-L-cWW-tHW-cWW

Number of instances in this motif group

8

Unit IDs

9Q1S|1|9|U|359
9Q1S|1|9|A|360
9Q1S|1|9|U|361
9Q1S|1|9|C|362
9Q1S|1|9|A|363
9Q1S|1|9|A|364
*
9Q1S|1|9|U|396
9Q1S|1|9|G|397
9Q1S|1|9|A|398
9Q1S|1|9|C|399
9Q1S|1|9|C|400
9Q1S|1|9|A|401
9Q1S|1|9|C|402
9Q1S|1|9|G|403

Current chains

Chain 9

18S rRNA

Nearby chains

Chain 5

Large subunit ribosomal RNA; LSU rRNA

Chain II

40S ribosomal protein S8

Chain LL

Small ribosomal subunit protein uS17

Chain XX

40S ribosomal protein S23