IL_6GSM_015

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

GUA*UUUUC

Length

8 nucleotides

Bulged bases

6GSM|1|2|U|259

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

IL_6GSM_015 not in the Motif Atlas

Homologous match to IL_4V88_397

Geometric discrepancy: 0.2107

The information below is about IL_4V88_397

Detailed Annotation

Major groove platform with extra cWW

Broad Annotation

Major groove platform

Motif group

IL_63959.1

Basepair signature

cWW-cSH-cWW-cWW

Number of instances in this motif group

18

Unit IDs

6GSM|1|2|G|203
6GSM|1|2|U|204
6GSM|1|2|A|205
*
6GSM|1|2|U|258
6GSM|1|2|U|259
6GSM|1|2|U|260
6GSM|1|2|U|261
6GSM|1|2|C|262

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain E

40S ribosomal protein S4

Chain I

40S ribosomal protein S8