IL_5VP2_211

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

GAUG*CGC

Length

7 nucleotides

Bulged bases

5VP2|1|2A|U|1033

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

IL_5VP2_211 not in the Motif Atlas

Homologous match to IL_9DFE_040

Geometric discrepancy: 0.1073

The information below is about IL_9DFE_040

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

No text annotation

Motif group

IL_76400.1

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

15

Unit IDs

5VP2|1|2A|G|1031
5VP2|1|2A|A|1032
5VP2|1|2A|U|1033
5VP2|1|2A|G|1034
*
5VP2|1|2A|C|1121
5VP2|1|2A|G|1122
5VP2|1|2A|C|1123

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36

Chain 2B

5S ribosomal RNA; 5S rRNA

Chain 2H

50S ribosomal protein L6

Chain 2Q

50S ribosomal protein L16