HL_3JYV_039

3D structure

PDB id

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

Description

Structure of the 40S rRNA and proteins and P/E tRNA for eukaryotic ribosome based on cryo-EM map of Thermomyces lanuginosus ribosome at 8.9A resolution

Experimental method

ELECTRON MICROSCOPY

Resolution

8.9 Å

Loop

Sequence

GA(OMC)U(OMG)AA(YYG)A(PSU)(5MC)

Length

11 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: OMC, OMG, YYG, PSU, 5MC

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_3JYV_039 not in the Motif Atlas

Homologous match to HL_6GSK_218

Geometric discrepancy: 0.4814

The information below is about HL_6GSK_218

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_14063.2

Basepair signature

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

Number of instances in this motif group

6

Unit IDs

3JYV|1|7|G|30
3JYV|1|7|A|31
3JYV|1|7|OMC|32
3JYV|1|7|U|33
3JYV|1|7|OMG|34
3JYV|1|7|A|35
3JYV|1|7|A|36
3JYV|1|7|YYG|37
3JYV|1|7|A|38
3JYV|1|7|PSU|39
3JYV|1|7|5MC|40

Current chains

Chain 7

P/E tRNA

Nearby chains

Chain A

Small subunit ribosomal RNA; SSU rRNA