J5_6GQ1_003

3D structure

PDB id

6GQ1 (explore in PDB, NAKB, or RNA 3D Hub)

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

4.4 Å

Loop

Sequence

CGAG*CGUAA*UGAACGUAG*CGA*UAAGAG

Length

27 nucleotides

Bulged bases

6GQ1|1|1|U|719, 6GQ1|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_6GQ1_003 not in the Motif Atlas

Homologous match to J5_8P9A_012

Geometric discrepancy: 0.1525

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

6GQ1|1|1|C|675
6GQ1|1|1|G|676
6GQ1|1|1|A|677
6GQ1|1|1|G|678
*
6GQ1|1|1|C|702
6GQ1|1|1|G|703
6GQ1|1|1|U|704
6GQ1|1|1|A|705
6GQ1|1|1|A|706
*
6GQ1|1|1|U|713
6GQ1|1|1|G|714
6GQ1|1|1|A|715
6GQ1|1|1|A|716
6GQ1|1|1|C|717
6GQ1|1|1|G|718
6GQ1|1|1|U|719
6GQ1|1|1|A|720
6GQ1|1|1|G|721
*
6GQ1|1|1|C|749
6GQ1|1|1|G|750
6GQ1|1|1|A|751
*
6GQ1|1|1|U|782
6GQ1|1|1|A|783
6GQ1|1|1|A|784
6GQ1|1|1|G|785
6GQ1|1|1|A|786
6GQ1|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