IL_8CMJ_268

3D structure

PDB id

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

Description

Translocation intermediate 4 (TI-4*) of 80S S. cerevisiae ribosome with eEF2 in the absence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

3.79 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

8CMJ|1|AA|A2M|2281, 8CMJ|1|AA|C|2287, 8CMJ|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_8CMJ_268 not in the Motif Atlas

Homologous match to IL_8C3A_095

Geometric discrepancy: 0.1229

The information below is about IL_8C3A_095

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_66080.1

Basepair signature

cWW-cWW-tSH-L-cWW-L

Number of instances in this motif group

5

Unit IDs

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

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain Z

60S ribosomal protein L41

Chain c

Small subunit ribosomal RNA; SSU rRNA