HL_3JAQ_022

3D structure

PDB id

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

Description

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

Experimental method

ELECTRON MICROSCOPY

Resolution

6 Å

Loop

Sequence

AUUUUGUUGGUUUCU

Length

15 nucleotides

Bulged bases

3JAQ|1|2|U|832

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

HL_3JAQ_022 not in the Motif Atlas

Homologous match to HL_4V88_205

Geometric discrepancy: 0.2191

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

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

Current chains

Chain 2

18S rRNA

Nearby chains

Chain L

uS17