HL_6GSM_023

3D structure

PDB id

6GSM (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

5.15 Å

Loop

Sequence

AUUUUGUUGGUUUCU

Length

15 nucleotides

Bulged bases

6GSM|1|2|U|832

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_6GSM_023 not in the Motif Atlas

Homologous match to HL_4V88_205

Geometric discrepancy: 0.3461

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

6GSM|1|2|A|828
6GSM|1|2|U|829
6GSM|1|2|U|830
6GSM|1|2|U|831
6GSM|1|2|U|832
6GSM|1|2|G|833
6GSM|1|2|U|834
6GSM|1|2|U|835
6GSM|1|2|G|836
6GSM|1|2|G|837
6GSM|1|2|U|838
6GSM|1|2|U|839
6GSM|1|2|U|840
6GSM|1|2|C|841
6GSM|1|2|U|842

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain G

40S ribosomal protein S6

Chain L

KLLA0A10483p