J3_8JDK_039

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

AGAUUAAG*CGCGC(A2M)AAU*(A2M)GU

Length

20 nucleotides

Bulged bases

8JDK|1|w|A|46

QA status

Modified nucleotides: A2M

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

J3_8JDK_039 not in the Motif Atlas

Homologous match to J3_8C3A_083

Geometric discrepancy: 0.0955

The information below is about J3_8C3A_083

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_46317.2

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

8JDK|1|w|A|40
8JDK|1|w|G|41
8JDK|1|w|A|42
8JDK|1|w|U|43
8JDK|1|w|U|44
8JDK|1|w|A|45
8JDK|1|w|A|46
8JDK|1|w|G|47
*
8JDK|1|w|C|479
8JDK|1|w|G|480
8JDK|1|w|C|481
8JDK|1|w|G|482
8JDK|1|w|C|483
8JDK|1|w|A2M|484
8JDK|1|w|A|485
8JDK|1|w|A|486
8JDK|1|w|U|487
*
8JDK|1|w|A2M|512
8JDK|1|w|G|513
8JDK|1|w|U|514

Current chains

Chain w

18S ribosomal RNA

Nearby chains

Chain 6

40S ribosomal protein S9

Chain AJ

40S ribosomal protein S23