J3_9Q1S_039

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

CACUG*CGUGAUGG*CGAG

Length

17 nucleotides

Bulged bases

9Q1S|1|9|U|1535, 9Q1S|1|9|G|1603

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

J3_9Q1S_039 not in the Motif Atlas

Homologous match to J3_9PN5_043

Geometric discrepancy: 0.2631

The information below is about J3_9PN5_043

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_03192.4

Basepair signature

cWW-cSS-tHW-F-F-F-cWW-cWW-cSH-cSH-F

Number of instances in this motif group

7

Unit IDs

9Q1S|1|9|C|1532
9Q1S|1|9|A|1533
9Q1S|1|9|C|1534
9Q1S|1|9|U|1535
9Q1S|1|9|G|1536
*
9Q1S|1|9|C|1597
9Q1S|1|9|G|1598
9Q1S|1|9|U|1599
9Q1S|1|9|G|1600
9Q1S|1|9|A|1601
9Q1S|1|9|U|1602
9Q1S|1|9|G|1603
9Q1S|1|9|G|1604
*
9Q1S|1|9|C|1635
9Q1S|1|9|G|1636
9Q1S|1|9|A|1637
9Q1S|1|9|G|1638

Current chains

Chain 9

18S rRNA

Nearby chains

Chain FF

Small ribosomal subunit protein uS7

Chain SS

40S ribosomal protein S18

Chain TT

Small ribosomal subunit protein eS19

Chain ZZ

40S ribosomal protein S25