HL_8XSX_039

3D structure

PDB id

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

Description

Cryo-EM structure of the human 80S ribosome with Tigecycline, E-tRNA, SERBP1 and eEF2

Experimental method

ELECTRON MICROSCOPY

Resolution

2.4 Å

Loop

Sequence

AGCAGUU

Length

7 nucleotides

Bulged bases

8XSX|1|L5|G|2421, 8XSX|1|L5|U|2425

QA status

Valid loop

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_8XSX_039 not in the Motif Atlas

Homologous match to HL_5TBW_032

Geometric discrepancy: 0.1922

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

8XSX|1|L5|A|2420
8XSX|1|L5|G|2421
8XSX|1|L5|C|2422
8XSX|1|L5|A|2423
8XSX|1|L5|G|2424
8XSX|1|L5|U|2425
8XSX|1|L5|U|2426

Current chains

Chain L5

28S rRNA

Nearby chains

Chain LP

60S ribosomal protein L17

Chain LR

60S ribosomal protein L19

Chain Ll

60S ribosomal protein L39