IL_5VP2_251

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

CCUG*CUGG

Length

8 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

IL_5VP2_251 not in the Motif Atlas

Geometric match to IL_6JDV_002

Geometric discrepancy: 0.2759

The information below is about IL_6JDV_002

Detailed Annotation

Tandem non-canonical cWW pairs

Broad Annotation

No text annotation

Motif group

IL_15225.2

Basepair signature

cWW-cWW-cWW-cWW

Number of instances in this motif group

39

Unit IDs

5VP2|1|2A|C|2107
5VP2|1|2A|C|2108
5VP2|1|2A|U|2109
5VP2|1|2A|G|2110
*
5VP2|1|2A|C|2179
5VP2|1|2A|U|2180
5VP2|1|2A|G|2181
5VP2|1|2A|G|2182

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 2y

Transfer RNA; tRNA