J5_8CMJ_003

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

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8CMJ|1|AA|U|719, 8CMJ|1|AA|A|784

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

J5_8CMJ_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.1177

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_23272.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

8CMJ|1|AA|C|675
8CMJ|1|AA|G|676
8CMJ|1|AA|A|677
8CMJ|1|AA|G|678
*
8CMJ|1|AA|C|702
8CMJ|1|AA|G|703
8CMJ|1|AA|U|704
8CMJ|1|AA|A|705
8CMJ|1|AA|A|706
*
8CMJ|1|AA|U|713
8CMJ|1|AA|G|714
8CMJ|1|AA|A|715
8CMJ|1|AA|A|716
8CMJ|1|AA|C|717
8CMJ|1|AA|G|718
8CMJ|1|AA|U|719
8CMJ|1|AA|A|720
8CMJ|1|AA|G|721
*
8CMJ|1|AA|C|749
8CMJ|1|AA|G|750
8CMJ|1|AA|A|751
*
8CMJ|1|AA|U|782
8CMJ|1|AA|A|783
8CMJ|1|AA|A|784
8CMJ|1|AA|G|785
8CMJ|1|AA|A|786
8CMJ|1|AA|G|787

Current chains

Chain AA

25S ribosomal RNA

Nearby chains

Chain C

60S ribosomal protein L18-A

Chain GG

60S ribosomal protein L4-A

Chain M

60S ribosomal protein L28

Chain N

60S ribosomal protein L29

Chain OO

60S ribosomal protein L13-A

Chain U

60S ribosomal protein L36-A