IL_5VP2_306

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

GGC*GC

Length

5 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_306 not in the Motif Atlas

Homologous match to IL_6CZR_407

Geometric discrepancy: 0.1854

The information below is about IL_6CZR_407

Detailed Annotation

Major groove platform

Broad Annotation

No text annotation

Motif group

IL_48076.5

Basepair signature

cWW-cSH-cWW

Number of instances in this motif group

44

Unit IDs

5VP2|1|2a|G|594
5VP2|1|2a|G|595
5VP2|1|2a|C|596
*
5VP2|1|2a|G|644
5VP2|1|2a|C|645

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2h

30S ribosomal protein S8

Chain 2q

30S ribosomal protein S17