IL_8JDJ_300

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

C(5MC)AA(A2M)UGCCUC(OMG)*(OMC)GCG

Length

16 nucleotides

Bulged bases

8JDJ|1|D|A2M|3785, 8JDJ|1|D|C|3791, 8JDJ|1|D|C|3810

QA status

Modified nucleotides: 5MC, A2M, OMG, OMC

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

IL_8JDJ_300 not in the Motif Atlas

Homologous match to IL_8C3A_095

Geometric discrepancy: 0.0877

The information below is about IL_8C3A_095

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

8JDJ|1|D|C|3781
8JDJ|1|D|5MC|3782
8JDJ|1|D|A|3783
8JDJ|1|D|A|3784
8JDJ|1|D|A2M|3785
8JDJ|1|D|U|3786
8JDJ|1|D|G|3787
8JDJ|1|D|C|3788
8JDJ|1|D|C|3789
8JDJ|1|D|U|3790
8JDJ|1|D|C|3791
8JDJ|1|D|OMG|3792
*
8JDJ|1|D|OMC|3808
8JDJ|1|D|G|3809
8JDJ|1|D|C|3810
8JDJ|1|D|G|3811

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain C

Transfer RNA; tRNA

Chain s

60S ribosomal protein L41

Chain w

Small subunit ribosomal RNA; SSU rRNA