IL_5J4D_309

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

UGCGAAC*GGAGGUAUA

Length

16 nucleotides

Bulged bases

5J4D|1|GB|G|1801, 5J4D|1|GB|G|1816, 5J4D|1|GB|U|1820

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

IL_5J4D_309 not in the Motif Atlas

Homologous match to IL_9DFE_070

Geometric discrepancy: 0.0552

The information below is about IL_9DFE_070

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_17069.6

Basepair signature

cWW-tSH-tHH-cSS-tWW-tHH-tSS-cWW

Number of instances in this motif group

5

Unit IDs

5J4D|1|GB|U|1798
5J4D|1|GB|G|1799
5J4D|1|GB|C|1800
5J4D|1|GB|G|1801
5J4D|1|GB|A|1802
5J4D|1|GB|A|1803
5J4D|1|GB|C|1804
*
5J4D|1|GB|G|1813
5J4D|1|GB|G|1814
5J4D|1|GB|A|1815
5J4D|1|GB|G|1816
5J4D|1|GB|G|1817
5J4D|1|GB|U|1818
5J4D|1|GB|A|1819
5J4D|1|GB|U|1820
5J4D|1|GB|A|1821

Current chains

Chain GB

25S ribosomal RNA

Nearby chains

Chain FB

Small subunit ribosomal RNA; SSU rRNA

Chain JB

50S ribosomal protein L2