J3_8S8D_010

3D structure

PDB id

8S8D (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a yeast 48S-AUC preinitiation complex in closed conformation (model py48S-AUC-2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.45 Å

Loop

Sequence

CCAGAC*GGGUG*UUAGACG

Length

18 nucleotides

Bulged bases

8S8D|1|2|A|1216, 8S8D|1|2|G|1443, 8S8D|1|2|C|1445

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_8S8D_010 not in the Motif Atlas

Homologous match to J3_8C3A_041

Geometric discrepancy: 0.1701

The information below is about J3_8C3A_041

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_23728.1

Basepair signature

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

Number of instances in this motif group

2

Unit IDs

8S8D|1|2|C|1214
8S8D|1|2|C|1215
8S8D|1|2|A|1216
8S8D|1|2|G|1217
8S8D|1|2|A|1218
8S8D|1|2|C|1219
*
8S8D|1|2|G|1262
8S8D|1|2|G|1263
8S8D|1|2|G|1264
8S8D|1|2|U|1265
8S8D|1|2|G|1266
*
8S8D|1|2|U|1440
8S8D|1|2|U|1441
8S8D|1|2|A|1442
8S8D|1|2|G|1443
8S8D|1|2|A|1444
8S8D|1|2|C|1445
8S8D|1|2|G|1446

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain K

KLLA0B08173p

Chain d

Small ribosomal subunit protein uS14

Chain f

Small ribosomal subunit protein eS31