HL_5D8B_008

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

GUUCAAAUC

Length

9 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

HL_5D8B_008 not in the Motif Atlas

Homologous match to HL_5AXM_003

Geometric discrepancy: 0.093

The information below is about HL_5AXM_003

Detailed Annotation

T-loop with 2 stacked bulged bases

Broad Annotation

T-loop

Motif group

HL_28252.9

Basepair signature

cWW-tWH-F-F-F-F-F

Number of instances in this motif group

141

Unit IDs

5D8B|1|ED|G|53
5D8B|1|ED|U|54
5D8B|1|ED|U|55
5D8B|1|ED|C|56
5D8B|1|ED|A|57
5D8B|1|ED|A|58
5D8B|1|ED|A|59
5D8B|1|ED|U|60
5D8B|1|ED|C|61

Current chains

Chain ED

tRNA

Nearby chains

Chain D

50S ribosomal protein L5

Chain K

50S ribosomal protein L16

Chain VC

Large subunit ribosomal RNA; LSU rRNA