HL_8XXL_014

3D structure

PDB id

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

Description

Cryo-EM structure of the human 40S ribosome with PDCD4

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

CAGCCG

Length

6 nucleotides

Bulged bases

None detected

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_8XXL_014 not in the Motif Atlas

Homologous match to HL_8C3A_206

Geometric discrepancy: 0.0556

The information below is about HL_8C3A_206

Detailed Annotation

GNRA variation

Broad Annotation

GNRA variation

Motif group

HL_02837.1

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

9

Unit IDs

8XXL|1|S2|C|618
8XXL|1|S2|A|619
8XXL|1|S2|G|620
8XXL|1|S2|C|621
8XXL|1|S2|C|622
8XXL|1|S2|G|623

Current chains

Chain S2

18S rRNA

Nearby chains

Chain CD

Programmed cell death protein 4

Chain SX

40S ribosomal protein S23