HL_3JYV_038

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

G(5MU)(PSU)CG(1MA)UCC

Length

9 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 5MU, PSU, 1MA

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_038 not in the Motif Atlas

Geometric match to HL_5E81_213

Geometric discrepancy: 0.1345

The information below is about HL_5E81_213

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.9

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

3JYV|1|7|G|53
3JYV|1|7|5MU|54
3JYV|1|7|PSU|55
3JYV|1|7|C|56
3JYV|1|7|G|57
3JYV|1|7|1MA|58
3JYV|1|7|U|59
3JYV|1|7|C|60
3JYV|1|7|C|61

Current chains

Chain 7

P/E tRNA

Nearby chains