J3_8S8D_009

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

CUUAAUUU*GGGGAAACUCAC*GGCCG

Length

25 nucleotides

Bulged bases

8S8D|1|2|G|1198, 8S8D|1|2|G|1200, 8S8D|1|2|A|1202, 8S8D|1|2|C|1455

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_009 not in the Motif Atlas

Homologous match to J3_8C3A_040

Geometric discrepancy: 0.0909

The information below is about J3_8C3A_040

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_83516.3

Basepair signature

cWW-F-F-F-tWW-F-tSH-tSS-cSS-F-F-F-F-F-cWW-cWW-F-F-F

Number of instances in this motif group

4

Unit IDs

8S8D|1|2|C|1179
8S8D|1|2|U|1180
8S8D|1|2|U|1181
8S8D|1|2|A|1182
8S8D|1|2|A|1183
8S8D|1|2|U|1184
8S8D|1|2|U|1185
8S8D|1|2|U|1186
*
8S8D|1|2|G|1197
8S8D|1|2|G|1198
8S8D|1|2|G|1199
8S8D|1|2|G|1200
8S8D|1|2|A|1201
8S8D|1|2|A|1202
8S8D|1|2|A|1203
8S8D|1|2|C|1204
8S8D|1|2|U|1205
8S8D|1|2|C|1206
8S8D|1|2|A|1207
8S8D|1|2|C|1208
*
8S8D|1|2|G|1452
8S8D|1|2|G|1453
8S8D|1|2|C|1454
8S8D|1|2|C|1455
8S8D|1|2|G|1456

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain P

KLLA0F07843p

Chain S

KLLA0B01562p

Chain U

Small ribosomal subunit protein uS10

Chain d

Small ribosomal subunit protein uS14

Chain f

Small ribosomal subunit protein eS31

Chain i

Eukaryotic translation initiation factor 1A