J4_5J4D_015

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

G(4SU)GG*CGU*AAGGUCG*CC

Length

16 nucleotides

Bulged bases

5J4D|1|D|4SU|8, 5J4D|1|D|U|47, 5J4D|1|D|C|48

QA status

Modified nucleotides: 4SU

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_015 not in the Motif Atlas

Homologous match to J4_6JXM_001

Geometric discrepancy: 0.2119

The information below is about J4_6JXM_001

Detailed Annotation

tRNA junction

Broad Annotation

No text annotation

Motif group

J4_95067.1

Basepair signature

cWW-F-cWW-cWW-cHS-F-cWW-cWW

Number of instances in this motif group

48

Unit IDs

5J4D|1|D|G|7
5J4D|1|D|4SU|8
5J4D|1|D|G|9
5J4D|1|D|G|10
*
5J4D|1|D|C|25
5J4D|1|D|G|26
5J4D|1|D|U|27
*
5J4D|1|D|A|43
5J4D|1|D|A|44
5J4D|1|D|G|45
5J4D|1|D|G|46
5J4D|1|D|U|47
5J4D|1|D|C|48
5J4D|1|D|G|49
*
5J4D|1|D|C|65
5J4D|1|D|C|66

Current chains

Chain D

tRNA

Nearby chains

Chain DA

50S ribosomal protein L33

Chain PA

30S ribosomal protein S7