J5_8CIV_003

3D structure

PDB id

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

Description

Translocation intermediate 5 (TI-5) of 80S S. cerevisiae ribosome with ligands and eEF2 in the presence of sordarin

Experimental method

ELECTRON MICROSCOPY

Resolution

2.47 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

8CIV|1|AA|U|719, 8CIV|1|AA|A|784, 8CIV|1|AA|G|785

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_8CIV_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.0688

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

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