IL_5VP2_209

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

CUAAGUG*CUUAAG

Length

13 nucleotides

Bulged bases

5VP2|1|2A|U|1142, 5VP2|1|2A|A|1143

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_209 not in the Motif Atlas

Homologous match to IL_4WF9_039

Geometric discrepancy: 0.1219

The information below is about IL_4WF9_039

Detailed Annotation

Kink-turn related

Broad Annotation

No text annotation

Motif group

IL_57188.6

Basepair signature

cWW-tWW-L-tWW-cWW-cSH

Number of instances in this motif group

6

Unit IDs

5VP2|1|2A|C|1018
5VP2|1|2A|U|1019
5VP2|1|2A|A|1020
5VP2|1|2A|A|1021
5VP2|1|2A|G|1022
5VP2|1|2A|U|1023
5VP2|1|2A|G|1024
*
5VP2|1|2A|C|1140
5VP2|1|2A|U|1141
5VP2|1|2A|U|1142
5VP2|1|2A|A|1142|||A
5VP2|1|2A|A|1143
5VP2|1|2A|G|1144

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 29

50S ribosomal protein L36

Chain 2N

50S ribosomal protein L13