IL_8JDK_116

3D structure

PDB id

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

Description

Structure of the Human cytoplasmic Ribosome with human tRNA Asp(ManQ34) and mRNA(GAU)

Experimental method

ELECTRON MICROSCOPY

Resolution

2.26 Å

Loop

Sequence

C(OMC)AG*CG

Length

6 nucleotides

Bulged bases

None detected

QA status

Modified nucleotides: 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_8JDK_116 not in the Motif Atlas

Homologous match to IL_5TBW_084

Geometric discrepancy: 0.0777

The information below is about IL_5TBW_084

Detailed Annotation

Major groove intercalation

Broad Annotation

No text annotation

Motif group

IL_88739.5

Basepair signature

cWW-L-cWW

Number of instances in this motif group

12

Unit IDs

8JDK|1|D|C|3700
8JDK|1|D|OMC|3701
8JDK|1|D|A|3702
8JDK|1|D|G|3703
*
8JDK|1|D|C|3749
8JDK|1|D|G|3750

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain G

60S ribosomal protein L8

Chain w

Small subunit ribosomal RNA; SSU rRNA