HL_3J79_078

3D structure

PDB id

3J79 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the Plasmodium falciparum 80S ribosome bound to the anti-protozoan drug emetine, large subunit

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

CAGCAAAAUG

Length

10 nucleotides

Bulged bases

None detected

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

HL_3J79_078 not in the Motif Atlas

Homologous match to HL_8C3A_229

Geometric discrepancy: 0.2546

The information below is about HL_8C3A_229

Detailed Annotation

Pseudoknot with intercalation

Broad Annotation

No text annotation

Motif group

HL_61933.2

Basepair signature

cWW-F-F-F-F-F-F-F-F

Number of instances in this motif group

7

Unit IDs

3J79|1|C|C|51
3J79|1|C|A|52
3J79|1|C|G|53
3J79|1|C|C|54
3J79|1|C|A|55
3J79|1|C|A|56
3J79|1|C|A|57
3J79|1|C|A|58
3J79|1|C|U|59
3J79|1|C|G|60

Current chains

Chain C

5.8S ribosomal RNA

Nearby chains

Chain 3

60S ribosomal protein uL29

Chain A

Large subunit ribosomal RNA; LSU rRNA

Chain Y

60S ribosomal protein uL23

Chain c

60S ribosomal protein eL37

Chain e

60S ribosomal protein eL39