IL_8JDK_106

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

GGGAA*U(OMC)C

Length

8 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_106 not in the Motif Atlas

Geometric match to IL_7RQB_093

Geometric discrepancy: 0.3715

The information below is about IL_7RQB_093

Detailed Annotation

Major groove platform with extra pair

Broad Annotation

Major groove platform

Motif group

IL_63450.2

Basepair signature

cWW-cWW-cSH-cWW

Number of instances in this motif group

8

Unit IDs

8JDK|1|D|G|2846
8JDK|1|D|G|2847
8JDK|1|D|G|2848
8JDK|1|D|A|2849
8JDK|1|D|A|2850
*
8JDK|1|D|U|3840
8JDK|1|D|OMC|3841
8JDK|1|D|C|3842

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain H

60S ribosomal protein L3

Chain a

60S ribosomal protein L23

Chain b

60S ribosomal protein L24