HL_8JDK_113

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

(PSU)AGUGG(H2U)GAG

Length

10 nucleotides

Bulged bases

8JDK|1|B|G|17, 8JDK|1|B|G|18, 8JDK|1|B|G|20

QA status

Modified nucleotides: PSU, H2U

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_8JDK_113 not in the Motif Atlas

Homologous match to HL_1IL2_007

Geometric discrepancy: 0.579

The information below is about HL_1IL2_007

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_45175.1

Basepair signature

cWW-cWS-F-F

Number of instances in this motif group

5

Unit IDs

8JDK|1|B|PSU|13
8JDK|1|B|A|14
8JDK|1|B|G|15
8JDK|1|B|U|16
8JDK|1|B|G|17
8JDK|1|B|G|18
8JDK|1|B|H2U|19
8JDK|1|B|G|20
8JDK|1|B|A|21
8JDK|1|B|G|22

Current chains

Chain B

tRNA (Asp)

Nearby chains

Chain D

Large subunit ribosomal RNA; LSU rRNA

Chain P

60S ribosomal protein L11

Chain t

60S ribosomal protein L36a