J3_3JAP_008

3D structure

PDB id

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

Description

Structure of a partial yeast 48S preinitiation complex in closed conformation

Experimental method

ELECTRON MICROSCOPY

Resolution

4.9 Å

Loop

Sequence

CCAGAC*GGGUG*UUAGACG

Length

18 nucleotides

Bulged bases

3JAP|1|2|A|1216, 3JAP|1|2|G|1443, 3JAP|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_3JAP_008 not in the Motif Atlas

Homologous match to J3_4V88_038

Geometric discrepancy: 0.2069

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

3JAP|1|2|C|1214
3JAP|1|2|C|1215
3JAP|1|2|A|1216
3JAP|1|2|G|1217
3JAP|1|2|A|1218
3JAP|1|2|C|1219
*
3JAP|1|2|G|1262
3JAP|1|2|G|1263
3JAP|1|2|G|1264
3JAP|1|2|U|1265
3JAP|1|2|G|1266
*
3JAP|1|2|U|1440
3JAP|1|2|U|1441
3JAP|1|2|A|1442
3JAP|1|2|G|1443
3JAP|1|2|A|1444
3JAP|1|2|C|1445
3JAP|1|2|G|1446

Current chains

Chain 2

18S rRNA

Nearby chains

Chain K

eS10

Chain M

eS12

Chain d

uS14

Chain f

eS31