IL_5VP2_216

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

AUGAGUAA*UGAAAUU

Length

15 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_216 not in the Motif Atlas

Homologous match to IL_9DFE_048

Geometric discrepancy: 0.0509

The information below is about IL_9DFE_048

Detailed Annotation

8x7 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_62167.3

Basepair signature

cWW-cWW-tSH-cSH-R-tWH-tHS-cWW

Number of instances in this motif group

20

Unit IDs

5VP2|1|2A|A|1262
5VP2|1|2A|U|1263
5VP2|1|2A|G|1264
5VP2|1|2A|A|1265
5VP2|1|2A|G|1266
5VP2|1|2A|U|1267
5VP2|1|2A|A|1268
5VP2|1|2A|A|1269
*
5VP2|1|2A|U|2011
5VP2|1|2A|G|2012
5VP2|1|2A|A|2013
5VP2|1|2A|A|2014
5VP2|1|2A|A|2015
5VP2|1|2A|U|2016
5VP2|1|2A|U|2017

Current chains

Chain 2A

23S Ribosomal RNA

Nearby chains

Chain 25

50S ribosomal protein L32

Chain 2F

50S ribosomal protein L4

Chain 2W

50S ribosomal protein L22