IL_5NDW_468

3D structure

PDB id

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

Description

Crystal structure of aminoglycoside TC007 bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

CGG*CACG

Length

7 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_5NDW_468 not in the Motif Atlas

Geometric match to IL_8C3A_468

Geometric discrepancy: 0.3659

The information below is about IL_8C3A_468

Detailed Annotation

Isolated non-canonical cWW pair

Broad Annotation

Isolated non-canonical cWW pair

Motif group

IL_10289.2

Basepair signature

cWW-cWW-cWW

Number of instances in this motif group

237

Unit IDs

5NDW|1|2|C|1177
5NDW|1|2|G|1178
5NDW|1|2|G|1179
*
5NDW|1|2|C|1459
5NDW|1|2|A|1460
5NDW|1|2|C|1461
5NDW|1|2|G|1462

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain C5

40S ribosomal protein S15

Chain C8

40S ribosomal protein S18-A

Chain SM

Suppressor protein STM1