J4_8CDR_003

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

CAAAUAU*AG*UGAU*AG

Length

15 nucleotides

Bulged bases

8CDR|1|AA|A|1452, 8CDR|1|AA|U|1455

QA status

Valid loop

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

J4_8CDR_003 not in the Motif Atlas

Homologous match to J4_8P9A_014

Geometric discrepancy: 0.0757

The information below is about J4_8P9A_014

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_34212.1

Basepair signature

cWW-F-cWW-F-F-F-cWW-F-cWW

Number of instances in this motif group

3

Unit IDs

8CDR|1|AA|C|1451
8CDR|1|AA|A|1452
8CDR|1|AA|A|1453
8CDR|1|AA|A|1454
8CDR|1|AA|U|1455
8CDR|1|AA|A|1456
8CDR|1|AA|U|1457
*
8CDR|1|AA|A|1475
8CDR|1|AA|G|1476
*
8CDR|1|AA|U|1877
8CDR|1|AA|G|1878
8CDR|1|AA|A|1879
8CDR|1|AA|U|1880
*
8CDR|1|AA|A|2352
8CDR|1|AA|G|2353

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain B

60S ribosomal protein L17-A

Chain D

60S ribosomal protein L19-A

Chain P

60S ribosomal protein L31-A