HL_5VP2_051

3D structure

PDB id

5VP2 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of the Thermus thermophilus 70S ribosome in complex with madumycin II and bound to mRNA and A-, P- and E-site tRNAs at 2.8A resolution

Experimental method

X-RAY DIFFRACTION

Resolution

2.8 Å

Loop

Sequence

CGGAUG

Length

6 nucleotides

Bulged bases

5VP2|1|1A|U|2230

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_5VP2_051 not in the Motif Atlas

Homologous match to HL_9DFE_050

Geometric discrepancy: 0.4425

The information below is about HL_9DFE_050

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

HL_32346.5

Basepair signature

cWW-F

Number of instances in this motif group

10

Unit IDs

5VP2|1|1A|C|2226
5VP2|1|1A|G|2227
5VP2|1|1A|G|2228
5VP2|1|1A|A|2229
5VP2|1|1A|U|2230
5VP2|1|1A|G|2231

Current chains

Chain 1A

23S Ribosomal RNA

Nearby chains

Chain 11

50S ribosomal protein L28

Chain 1D

50S ribosomal protein L2

Chain 1I

50S ribosomal protein L9