J4_3JAP_003

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

AAG*CGAAAG*CCAUAAACUAUG*UU

Length

23 nucleotides

Bulged bases

3JAP|1|2|A|622, 3JAP|1|2|U|1023, 3JAP|1|2|A|1025, 3JAP|1|2|U|1028, 3JAP|1|2|U|1030

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_3JAP_003 not in the Motif Atlas

Homologous match to J4_8C3A_022

Geometric discrepancy: 0.1356

The information below is about J4_8C3A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_61885.4

Basepair signature

cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F-F-F

Number of instances in this motif group

5

Unit IDs

3JAP|1|2|A|621
3JAP|1|2|A|622
3JAP|1|2|G|623
*
3JAP|1|2|C|974
3JAP|1|2|G|975
3JAP|1|2|A|976
3JAP|1|2|A|977
3JAP|1|2|A|978
3JAP|1|2|G|979
*
3JAP|1|2|C|1020
3JAP|1|2|C|1021
3JAP|1|2|A|1022
3JAP|1|2|U|1023
3JAP|1|2|A|1024
3JAP|1|2|A|1025
3JAP|1|2|A|1026
3JAP|1|2|C|1027
3JAP|1|2|U|1028
3JAP|1|2|A|1029
3JAP|1|2|U|1030
3JAP|1|2|G|1031
*
3JAP|1|2|U|1102
3JAP|1|2|U|1103

Current chains

Chain 2

18S rRNA

Nearby chains

Chain L

uS17

Chain N

uS15

Chain O

uS11

Chain W

uS8

Chain X

uS12

Chain a

eS26

Chain h

eL41

Chain p

eIF3c