IL_5VP2_334

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

C(5MC)G*CAAG

Length

7 nucleotides

Bulged bases

5VP2|1|2a|A|1503

QA status

Modified nucleotides: 5MC

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_334 not in the Motif Atlas

Homologous match to IL_5J7L_058

Geometric discrepancy: 0.1649

The information below is about IL_5J7L_058

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_61438.4

Basepair signature

cWW-L-cWW

Number of instances in this motif group

4

Unit IDs

5VP2|1|2a|C|1399
5VP2|1|2a|5MC|1400
5VP2|1|2a|G|1401
*
5VP2|1|2a|C|1501
5VP2|1|2a|A|1502
5VP2|1|2a|A|1503
5VP2|1|2a|G|1504

Current chains

Chain 2a

16S ribosomal RNA

Nearby chains

Chain 2v

mRNA

Chain 2x

Transfer RNA; tRNA