HL_5J4D_225

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

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

5J4D|1|D|C|16, 5J4D|1|D|G|18, 5J4D|1|D|G|19, 5J4D|1|D|U|20, 5J4D|1|D|A|21

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_225 not in the Motif Atlas

Homologous match to HL_3WQY_001

Geometric discrepancy: 0.3298

The information below is about HL_3WQY_001

Detailed Annotation

tRNA D-loop

Broad Annotation

tRNA D-loop

Motif group

HL_57684.1

Basepair signature

cWW-F-F

Number of instances in this motif group

4

Unit IDs

5J4D|1|D|C|13
5J4D|1|D|A|14
5J4D|1|D|G|15
5J4D|1|D|C|16
5J4D|1|D|C|17
5J4D|1|D|U|17|||A
5J4D|1|D|G|18
5J4D|1|D|G|19
5J4D|1|D|U|20
5J4D|1|D|A|21
5J4D|1|D|G|22

Current chains

Chain D

tRNA

Nearby chains

Chain B

Large subunit ribosomal RNA; LSU rRNA