J4_3JYV_001

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

UUA(2MG)*C(M2G)C*GAG(7MG)UC(5MC)*GA

Length

16 nucleotides

Bulged bases

3JYV|1|7|U|8, 3JYV|1|7|U|47, 3JYV|1|7|C|48

QA status

Modified nucleotides: 2MG, M2G, 7MG, 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

J4_3JYV_001 not in the Motif Atlas

Homologous match to J4_1IL2_001

Geometric discrepancy: 0.3497

The information below is about J4_1IL2_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

3JYV|1|7|U|7
3JYV|1|7|U|8
3JYV|1|7|A|9
3JYV|1|7|2MG|10
*
3JYV|1|7|C|25
3JYV|1|7|M2G|26
3JYV|1|7|C|27
*
3JYV|1|7|G|43
3JYV|1|7|A|44
3JYV|1|7|G|45
3JYV|1|7|7MG|46
3JYV|1|7|U|47
3JYV|1|7|C|48
3JYV|1|7|5MC|49
*
3JYV|1|7|G|65
3JYV|1|7|A|66

Current chains

Chain 7

P/E tRNA

Nearby chains

Chain A

Small subunit ribosomal RNA; SSU rRNA