J4_8JDM_011

3D structure

PDB id

8JDM (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the Human cytoplasmic Ribosome with human tRNA Tyr(GalQ34) and mRNA(UAU) (rotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.67 Å

Loop

Sequence

CUG*CG*CUUAAGGUAG*UGAA(UY1)G

Length

21 nucleotides

Bulged bases

8JDM|1|D|UY1|3818

QA status

Modified nucleotides: UY1

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_8JDM_011 not in the Motif Atlas

Homologous match to J4_8P9A_018

Geometric discrepancy: 0.123

The information below is about J4_8P9A_018

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_42306.1

Basepair signature

cWW-tSS-cSS-cWH-cWW-tWH-tHS-cWW-cWW-tWW-F-cSH-F-F

Number of instances in this motif group

5

Unit IDs

8JDM|1|D|C|3696
8JDM|1|D|U|3697
8JDM|1|D|G|3698
*
8JDM|1|D|C|3752
8JDM|1|D|G|3753
*
8JDM|1|D|C|3771
8JDM|1|D|U|3772
8JDM|1|D|U|3773
8JDM|1|D|A|3774
8JDM|1|D|A|3775
8JDM|1|D|G|3776
8JDM|1|D|G|3777
8JDM|1|D|U|3778
8JDM|1|D|A|3779
8JDM|1|D|G|3780
*
8JDM|1|D|U|3814
8JDM|1|D|G|3815
8JDM|1|D|A|3816
8JDM|1|D|A|3817
8JDM|1|D|UY1|3818
8JDM|1|D|G|3819

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain G

60S ribosomal protein L8

Chain s

60S ribosomal protein L41

Chain w

Small subunit ribosomal RNA; SSU rRNA