HL_5J4D_175

3D structure

PDB id

5J4D (explore in PDB, NAKB, or RNA 3D Hub)

Description

E. coli release factor 1 bound to the 70S ribosome in response to a pseudouridylated stop codon

Experimental method

X-RAY DIFFRACTION

Resolution

3.1 Å

Loop

Sequence

GCAAAUC

Length

7 nucleotides

Bulged bases

5J4D|1|GB|C|1493, 5J4D|1|GB|U|1497

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_5J4D_175 not in the Motif Atlas

Homologous match to HL_9DFE_036

Geometric discrepancy: 0.118

The information below is about HL_9DFE_036

Detailed Annotation

Pseudoknot geometry with 3' bulge

Broad Annotation

No text annotation

Motif group

HL_49081.1

Basepair signature

cWW-F-F-F

Number of instances in this motif group

17

Unit IDs

5J4D|1|GB|G|1492
5J4D|1|GB|C|1493
5J4D|1|GB|A|1494
5J4D|1|GB|A|1495
5J4D|1|GB|A|1496
5J4D|1|GB|U|1497
5J4D|1|GB|C|1498

Current chains

Chain GB

25S ribosomal RNA

Nearby chains

Chain JB

50S ribosomal protein L2