J4_5J4D_022

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

CGAUAAA*UC*GCGC*GG

Length

15 nucleotides

Bulged bases

5J4D|1|GB|G|1271, 5J4D|1|GB|A|1272, 5J4D|1|GB|U|1273, 5J4D|1|GB|G|1647

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

J4_5J4D_022 not in the Motif Atlas

Homologous match to J4_9DFE_003

Geometric discrepancy: 0.0618

The information below is about J4_9DFE_003

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_64571.6

Basepair signature

cWW-F-cWW-tSS-cWW-F-cWW

Number of instances in this motif group

4

Unit IDs

5J4D|1|GB|C|1270
5J4D|1|GB|G|1271
5J4D|1|GB|A|1272
5J4D|1|GB|U|1273
5J4D|1|GB|A|1274
5J4D|1|GB|A|1275
5J4D|1|GB|A|1276
*
5J4D|1|GB|U|1294
5J4D|1|GB|C|1295
*
5J4D|1|GB|G|1645
5J4D|1|GB|C|1646
5J4D|1|GB|G|1647
5J4D|1|GB|C|1648
*
5J4D|1|GB|G|2009
5J4D|1|GB|G|2010

Current chains

Chain GB

25S ribosomal RNA

Nearby chains

Chain HC

50S ribosomal protein L32

Chain TB

50S ribosomal protein L17

Chain YB

50S ribosomal protein L22