IL_8CDR_253

3D structure

PDB id

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

Description

Translocation intermediate 2 (TI-2) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.04 Å

Loop

Sequence

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

Length

16 nucleotides

Bulged bases

8CDR|1|AA|A2M|2281, 8CDR|1|AA|C|2287, 8CDR|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_8CDR_253 not in the Motif Atlas

Homologous match to IL_8C3A_095

Geometric discrepancy: 0.06

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

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

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain Z

60S ribosomal protein L41-A

Chain c

Small subunit ribosomal RNA; SSU rRNA