HL_8JDJ_006

3D structure

PDB id

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

Description

Structure of the Human cytoplasmic Ribosome with human tRNA Asp(Q34) and mRNA(GAU)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.5 Å

Loop

Sequence

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

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_8JDJ_006 not in the Motif Atlas

Homologous match to HL_3KFU_006

Geometric discrepancy: 0.1278

The information below is about HL_3KFU_006

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_33597.2

Basepair signature

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

Number of instances in this motif group

135

Unit IDs

8JDJ|1|C|G|52
8JDJ|1|C|5MU|53
8JDJ|1|C|PSU|54
8JDJ|1|C|C|55
8JDJ|1|C|G|56
8JDJ|1|C|1MA|57
8JDJ|1|C|U|58
8JDJ|1|C|U|59
8JDJ|1|C|C|60

Current chains

Chain C

tRNA(Asp)

Nearby chains

Chain D

Large subunit ribosomal RNA; LSU rRNA

Chain O

60S ribosomal protein L10-like