IL_8CDL_245

3D structure

PDB id

8CDL (explore in PDB, NAKB, or RNA 3D Hub)

Description

80S S. cerevisiae ribosome with ligands in hybrid-2 pre-translocation (PRE-H2) complex

Experimental method

ELECTRON MICROSCOPY

Resolution

2.72 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

8CDL|1|AA|A2M|2281, 8CDL|1|AA|C|2287, 8CDL|1|AA|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

IL_8CDL_245 not in the Motif Atlas

Homologous match to IL_8P9A_318

Geometric discrepancy: 0.0748

The information below is about IL_8P9A_318

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_84014.1

Basepair signature

cWW-L-R-cHW-cWW-L-L-tSW-L

Number of instances in this motif group

8

Unit IDs

8CDL|1|AA|C|2277
8CDL|1|AA|5MC|2278
8CDL|1|AA|A|2279
8CDL|1|AA|A2M|2280
8CDL|1|AA|A2M|2281
8CDL|1|AA|U|2282
8CDL|1|AA|G|2283
8CDL|1|AA|C|2284
8CDL|1|AA|C|2285
8CDL|1|AA|U|2286
8CDL|1|AA|C|2287
8CDL|1|AA|OMG|2288
*
8CDL|1|AA|C|2304
8CDL|1|AA|G|2305
8CDL|1|AA|C|2306
8CDL|1|AA|G|2307

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain Bb

Transfer RNA; tRNA

Chain Z

60S ribosomal protein L41-A

Chain c

Small subunit ribosomal RNA; SSU rRNA