J4_3JAQ_002

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

CAUUAAAUC*GCC*GUAAC*GG

Length

19 nucleotides

Bulged bases

3JAQ|1|2|A|358

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

J4_3JAQ_002 not in the Motif Atlas

Homologous match to J4_8P9A_021

Geometric discrepancy: 0.0895

The information below is about J4_8P9A_021

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_15241.2

Basepair signature

cWW-cSH-tHS-cWW-F-F-tHW-F-cWW-tHW-F-cWW

Number of instances in this motif group

3

Unit IDs

3JAQ|1|2|C|99
3JAQ|1|2|A|100
3JAQ|1|2|U|101
3JAQ|1|2|U|102
3JAQ|1|2|A|103
3JAQ|1|2|A|104
3JAQ|1|2|A|105
3JAQ|1|2|U|106
3JAQ|1|2|C|107
*
3JAQ|1|2|G|306
3JAQ|1|2|C|307
3JAQ|1|2|C|308
*
3JAQ|1|2|G|356
3JAQ|1|2|U|357
3JAQ|1|2|A|358
3JAQ|1|2|A|359
3JAQ|1|2|C|360
*
3JAQ|1|2|G|382
3JAQ|1|2|G|383

Current chains

Chain 2

18S rRNA

Nearby chains

Chain E

eS4

Chain I

eS8

Chain L

uS17

Chain X

uS12