J3_6SNT_025

3D structure

PDB id

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

Description

Yeast 80S ribosome stalled on SDD1 mRNA.

Experimental method

ELECTRON MICROSCOPY

Resolution

2.8 Å

Loop

Sequence

CCAGAC*GGGUG*UUAGACG

Length

18 nucleotides

Bulged bases

6SNT|1|2|A|1217, 6SNT|1|2|G|1445, 6SNT|1|2|C|1447

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

J3_6SNT_025 not in the Motif Atlas

Homologous match to J3_4V88_038

Geometric discrepancy: 0.121

The information below is about J3_4V88_038

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_75993.1

Basepair signature

cWW-tWH-F-F-tHS-cWW-cWW-cWW-F

Number of instances in this motif group

2

Unit IDs

6SNT|1|2|C|1215
6SNT|1|2|C|1216
6SNT|1|2|A|1217
6SNT|1|2|G|1218
6SNT|1|2|A|1219
6SNT|1|2|C|1220
*
6SNT|1|2|G|1263
6SNT|1|2|G|1264
6SNT|1|2|G|1265
6SNT|1|2|U|1266
6SNT|1|2|G|1267
*
6SNT|1|2|U|1442
6SNT|1|2|U|1443
6SNT|1|2|A|1444
6SNT|1|2|G|1445
6SNT|1|2|A|1446
6SNT|1|2|C|1447
6SNT|1|2|G|1448

Current chains

Chain 2

Saccharomyces cerevisiae S288C 18S ribosomal RNA (RDN18-1), rRNA

Nearby chains

Chain K

40S ribosomal protein S10-A

Chain d

40S ribosomal protein S29-A

Chain f

Ubiquitin-40S ribosomal protein S31