HL_5D8B_009

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

CAGCCUGGUAG

Length

11 nucleotides

Bulged bases

5D8B|1|FD|C|16, 5D8B|1|FD|G|18, 5D8B|1|FD|G|19, 5D8B|1|FD|U|20

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

HL_5D8B_009 not in the Motif Atlas

Homologous match to HL_1QF6_001

Geometric discrepancy: 0.146

The information below is about HL_1QF6_001

Detailed Annotation

tRNA D-loop

Broad Annotation

No text annotation

Motif group

HL_20811.4

Basepair signature

cWW-cWS-F

Number of instances in this motif group

14

Unit IDs

5D8B|1|FD|C|13
5D8B|1|FD|A|14
5D8B|1|FD|G|15
5D8B|1|FD|C|16
5D8B|1|FD|C|17
5D8B|1|FD|U|17|||A
5D8B|1|FD|G|18
5D8B|1|FD|G|19
5D8B|1|FD|U|20
5D8B|1|FD|A|21
5D8B|1|FD|G|22

Current chains

Chain FD

tRNA

Nearby chains

Chain ZA

50S ribosomal protein L5

Chain ZC

Large subunit ribosomal RNA; LSU rRNA