HL_5NDV_210

3D structure

PDB id

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

Description

Crystal structure of Paromomycin bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.3 Å

Loop

Sequence

AUUGAGAGCU

Length

10 nucleotides

Bulged bases

5NDV|1|6|G|1243, 5NDV|1|6|G|1245

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

HL_5NDV_210 not in the Motif Atlas

Homologous match to HL_4V88_213

Geometric discrepancy: 0.2989

The information below is about HL_4V88_213

Detailed Annotation

Anticodon loop related

Broad Annotation

Anticodon loop related

Motif group

HL_27115.2

Basepair signature

cWW-F-F-F-F-F-F

Number of instances in this motif group

22

Unit IDs

5NDV|1|6|A|1238
5NDV|1|6|U|1239
5NDV|1|6|U|1240
5NDV|1|6|G|1241
5NDV|1|6|A|1242
5NDV|1|6|G|1243
5NDV|1|6|A|1244
5NDV|1|6|G|1245
5NDV|1|6|C|1246
5NDV|1|6|U|1247

Current chains

Chain 6

18S ribosomal RNA

Nearby chains

Chain c5

40S ribosomal protein S15

Chain d9

40S ribosomal protein S29-A