J3_5J4D_071

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

GC*GUGAAAAGAAC*GAGUGAAAUAGAGCC

Length

28 nucleotides

Bulged bases

5J4D|1|GB|U|504, 5J4D|1|GB|G|508

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

J3_5J4D_071 not in the Motif Atlas

Homologous match to J3_9DFE_002

Geometric discrepancy: 0.1243

The information below is about J3_9DFE_002

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_17917.2

Basepair signature

cWW-tWH-cSS-cWW-tSH-tHH-cWW-F-F-tWW-tSS-cSS-tWW-tSH-tWH-cSW-F-tHS-cWW-F

Number of instances in this motif group

10

Unit IDs

5J4D|1|GB|G|30
5J4D|1|GB|C|31
*
5J4D|1|GB|G|474
5J4D|1|GB|U|475
5J4D|1|GB|G|476
5J4D|1|GB|A|477
5J4D|1|GB|A|478
5J4D|1|GB|A|479
5J4D|1|GB|A|480
5J4D|1|GB|G|481
5J4D|1|GB|A|482
5J4D|1|GB|A|483
5J4D|1|GB|C|484
*
5J4D|1|GB|G|496
5J4D|1|GB|A|497
5J4D|1|GB|G|498
5J4D|1|GB|U|499
5J4D|1|GB|G|500
5J4D|1|GB|A|501
5J4D|1|GB|A|502
5J4D|1|GB|A|503
5J4D|1|GB|U|504
5J4D|1|GB|A|505
5J4D|1|GB|G|506
5J4D|1|GB|A|507
5J4D|1|GB|G|508
5J4D|1|GB|C|509
5J4D|1|GB|C|510

Current chains

Chain GB

25S ribosomal RNA

Nearby chains

Chain AC

50S ribosomal protein L24

Chain WB

50S ribosomal protein L20

Chain YB

50S ribosomal protein L22