IL_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

UAUAAGC*GUGAA

Length

12 nucleotides

Bulged bases

3JAP|1|2|U|66, 3JAP|1|2|A|68

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_3JAP_008 not in the Motif Atlas

Geometric match to IL_4WFL_001

Geometric discrepancy: 0.3161

The information below is about IL_4WFL_001

Detailed Annotation

Double sheared with non-canonical cWW

Broad Annotation

Double sheared

Motif group

IL_87767.2

Basepair signature

cWW-L-R-tSH-tHS-cWW

Number of instances in this motif group

17

Unit IDs

3JAP|1|2|U|64
3JAP|1|2|A|65
3JAP|1|2|U|66
3JAP|1|2|A|67
3JAP|1|2|A|68
3JAP|1|2|G|69
3JAP|1|2|C|70
*
3JAP|1|2|G|81
3JAP|1|2|U|82
3JAP|1|2|G|83
3JAP|1|2|A|84
3JAP|1|2|A|85

Current chains

Chain 2

18S rRNA

Nearby chains

Chain G

eS6

Chain Y

eS24