IL_6GQ1_055

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

GAGUG*CUC

Length

8 nucleotides

Bulged bases

6GQ1|1|1|A|1263

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

IL_6GQ1_055 not in the Motif Atlas

Geometric match to IL_1MMS_002

Geometric discrepancy: 0.2761

The information below is about IL_1MMS_002

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_51387.3

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

21

Unit IDs

6GQ1|1|1|G|1262
6GQ1|1|1|A|1263
6GQ1|1|1|G|1264
6GQ1|1|1|U|1265
6GQ1|1|1|G|1266
*
6GQ1|1|1|C|1275
6GQ1|1|1|U|1276
6GQ1|1|1|C|1277

Current chains

Chain 1

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

Nearby chains

Chain P0

60S acidic ribosomal protein P0

Chain P2

60S ribosomal protein L12-A

Chain m

Ubiquitin-60S ribosomal protein L40