IL_5VP2_181

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

UGAGUAG*CGAAAG

Length

13 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_181 not in the Motif Atlas

Homologous match to IL_9DFE_007

Geometric discrepancy: 0.0959

The information below is about IL_9DFE_007

Detailed Annotation

7x6 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_02666.1

Basepair signature

cWW-tSH-tHH-cSH-tWH-tHS-cWW

Number of instances in this motif group

17

Unit IDs

5VP2|1|2A|U|239
5VP2|1|2A|G|240
5VP2|1|2A|A|241
5VP2|1|2A|G|242
5VP2|1|2A|U|243
5VP2|1|2A|A|244
5VP2|1|2A|G|245
*
5VP2|1|2A|C|253
5VP2|1|2A|G|254
5VP2|1|2A|A|255
5VP2|1|2A|A|256
5VP2|1|2A|A|257
5VP2|1|2A|G|258

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 28

50S ribosomal protein L35

Chain 2P

50S ribosomal protein L15