HL_8JDK_037

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

AG(OMC)A(OMG)UU

Length

7 nucleotides

Bulged bases

8JDK|1|D|G|2421, 8JDK|1|D|A|2423, 8JDK|1|D|U|2425

QA status

Modified nucleotides: OMC, OMG

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_037 not in the Motif Atlas

Homologous match to HL_5TBW_032

Geometric discrepancy: 0.1532

The information below is about HL_5TBW_032

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_40756.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

14

Unit IDs

8JDK|1|D|A|2420
8JDK|1|D|G|2421
8JDK|1|D|OMC|2422
8JDK|1|D|A|2423
8JDK|1|D|OMG|2424
8JDK|1|D|U|2425
8JDK|1|D|U|2426

Current chains

Chain D

28S ribosomal RNA

Nearby chains

Chain U

60S ribosomal protein L17

Chain W

60S ribosomal protein L19

Chain q

60S ribosomal protein L39