IL_9DP7_088

3D structure

PDB id

9DP7 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Hypopseudouridylated yeast 80S bound with Taura syndrome virus (TSV) internal ribosome entry site (IRES) and hygromycin B, Class II

Experimental method

ELECTRON MICROSCOPY

Resolution

2.38 Å

Loop

Sequence

C(5MC)A(A2M)(A2M)UGCCUC(OMG)*CGCG

Length

16 nucleotides

Bulged bases

9DP7|1|A1|A2M|2281, 9DP7|1|A1|C|2287, 9DP7|1|A1|C|2306

QA status

Modified nucleotides: 5MC, A2M, OMG

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

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

Not in a motif group

Basepair signature

Not available

Number of instances in this motif group

0

Unit IDs

9DP7|1|A1|C|2277
9DP7|1|A1|5MC|2278
9DP7|1|A1|A|2279
9DP7|1|A1|A2M|2280
9DP7|1|A1|A2M|2281
9DP7|1|A1|U|2282
9DP7|1|A1|G|2283
9DP7|1|A1|C|2284
9DP7|1|A1|C|2285
9DP7|1|A1|U|2286
9DP7|1|A1|C|2287
9DP7|1|A1|OMG|2288
*
9DP7|1|A1|C|2304
9DP7|1|A1|G|2305
9DP7|1|A1|C|2306
9DP7|1|A1|G|2307

Current chains

Chain A1

25S rRNA

Nearby chains

Chain An

60S ribosomal protein L41-A

Chain B5

Small subunit ribosomal RNA; SSU rRNA