IL_5ND8_007

3D structure

PDB id

5ND8 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hibernating ribosome from Staphylococcus aureus (Unrotated state)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.7 Å

Loop

Sequence

GAGAACUG*CUUAGUACC

Length

17 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_5ND8_007 not in the Motif Atlas

Homologous match to IL_4WF9_008

Geometric discrepancy: 0.1308

The information below is about IL_4WF9_008

Detailed Annotation

9x8 Sarcin-Ricin; G-bulge

Broad Annotation

Sarcin-Ricin; G-bulge

Motif group

IL_84694.2

Basepair signature

cWW-L-R-tSH-tHW-tHH-tHS-cWW-cWW

Number of instances in this motif group

3

Unit IDs

5ND8|1|A|G|190
5ND8|1|A|A|191
5ND8|1|A|G|192
5ND8|1|A|A|193
5ND8|1|A|A|194
5ND8|1|A|C|195
5ND8|1|A|U|196
5ND8|1|A|G|197
*
5ND8|1|A|C|204
5ND8|1|A|U|205
5ND8|1|A|U|206
5ND8|1|A|A|207
5ND8|1|A|G|208
5ND8|1|A|U|209
5ND8|1|A|A|210
5ND8|1|A|C|211
5ND8|1|A|C|212

Current chains

Chain A

23S ribosomal RNA

Nearby chains

Chain 0

50S ribosomal protein L28

Chain 6

50S ribosomal protein L34

Chain O

50S ribosomal protein L15