J5_6GQB_003

3D structure

PDB id

6GQB (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM reconstruction of yeast 80S ribosome in complex with mRNA, tRNA and eEF2 (GDP+AlF4/sordarin)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

6GQB|1|1|U|719, 6GQB|1|1|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_6GQB_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.1464

The information below is about J5_8P9A_012

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_56629.1

Basepair signature

cWW-F-F-tSS-F-cWW-cWW-F-F-cWW-F-cWW-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

6GQB|1|1|C|675
6GQB|1|1|G|676
6GQB|1|1|A|677
6GQB|1|1|G|678
*
6GQB|1|1|C|702
6GQB|1|1|G|703
6GQB|1|1|U|704
6GQB|1|1|A|705
6GQB|1|1|A|706
*
6GQB|1|1|U|713
6GQB|1|1|G|714
6GQB|1|1|A|715
6GQB|1|1|A|716
6GQB|1|1|C|717
6GQB|1|1|G|718
6GQB|1|1|U|719
6GQB|1|1|A|720
6GQB|1|1|G|721
*
6GQB|1|1|C|749
6GQB|1|1|G|750
6GQB|1|1|A|751
*
6GQB|1|1|U|782
6GQB|1|1|A|783
6GQB|1|1|A|784
6GQB|1|1|G|785
6GQB|1|1|A|786
6GQB|1|1|G|787

Current chains

Chain 1

Saccharomyces cerevisiae S288C 35S pre-ribosomal RNA (RDN37-1), miscRNA

Nearby chains

Chain C

60S ribosomal protein L4-A

Chain L

60S ribosomal protein L13-A

Chain Q

60S ribosomal protein L18-A

Chain a

60S ribosomal protein L28

Chain b

60S ribosomal protein L29

Chain i

60S ribosomal protein L36-A