J3_5D8B_063

3D structure

PDB id

5D8B (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of T. thermophilus ribosome containing a P-site wobble mismatch

Experimental method

X-RAY DIFFRACTION

Resolution

3.63 Å

Loop

Sequence

UG*UGUUG*CGCAA

Length

12 nucleotides

Bulged bases

None detected

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_5D8B_063 not in the Motif Atlas

Homologous match to J3_6CZR_024

Geometric discrepancy: 0.2005

The information below is about J3_6CZR_024

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_04260.1

Basepair signature

cWW-F-F-F-F-F-cWW-cWW

Number of instances in this motif group

2

Unit IDs

5D8B|1|YC|U|1073
5D8B|1|YC|G|1074
*
5D8B|1|YC|U|1083
5D8B|1|YC|G|1084
5D8B|1|YC|U|1085
5D8B|1|YC|U|1086
5D8B|1|YC|G|1087
*
5D8B|1|YC|C|1098
5D8B|1|YC|G|1099
5D8B|1|YC|C|1100
5D8B|1|YC|A|1101
5D8B|1|YC|A|1102

Current chains

Chain YC

16S ribosomal RNA

Nearby chains

Chain BC

30S ribosomal protein S5

Chain YB

30S ribosomal protein S2