IL_8CF5_250

3D structure

PDB id

8CF5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Translocation intermediate 1 (TI-1) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.71 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

8CF5|1|AA|A2M|2281, 8CF5|1|AA|C|2287, 8CF5|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_8CF5_250 not in the Motif Atlas

Homologous match to IL_8P9A_318

Geometric discrepancy: 0.1023

The information below is about IL_8P9A_318

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_42218.2

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

8CF5|1|AA|C|2277
8CF5|1|AA|5MC|2278
8CF5|1|AA|A|2279
8CF5|1|AA|A2M|2280
8CF5|1|AA|A2M|2281
8CF5|1|AA|U|2282
8CF5|1|AA|G|2283
8CF5|1|AA|C|2284
8CF5|1|AA|C|2285
8CF5|1|AA|U|2286
8CF5|1|AA|C|2287
8CF5|1|AA|OMG|2288
*
8CF5|1|AA|C|2304
8CF5|1|AA|G|2305
8CF5|1|AA|C|2306
8CF5|1|AA|G|2307

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain Bb

Transfer RNA; tRNA

Chain Z

60S ribosomal protein L41

Chain c

Small subunit ribosomal RNA; SSU rRNA