HL_3JAP_021

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

AUUUUGUUGGUUUCU

Length

15 nucleotides

Bulged bases

None detected

QA status

Unknown status

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

HL_3JAP_021 not in the Motif Atlas

Homologous match to HL_4V88_205

Geometric discrepancy: 0.1951

The information below is about HL_4V88_205

Detailed Annotation

Pseudoknot geometry

Broad Annotation

No text annotation

Motif group

HL_88364.1

Basepair signature

cWW-cWW-F-F-F-F-F-F-F-F-F-F-F

Number of instances in this motif group

3

Unit IDs

3JAP|1|2|A|828
3JAP|1|2|U|829
3JAP|1|2|U|830
3JAP|1|2|U|831
3JAP|1|2|U|832
3JAP|1|2|G|833
3JAP|1|2|U|834
3JAP|1|2|U|835
3JAP|1|2|G|836
3JAP|1|2|G|837
3JAP|1|2|U|838
3JAP|1|2|U|839
3JAP|1|2|U|840
3JAP|1|2|C|841
3JAP|1|2|U|842

Current chains

Chain 2

18S rRNA

Nearby chains

Chain L

uS17