J4_7SYP_002

3D structure

PDB id

7SYP (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the wt IRES and 40S ribosome binary complex, open conformation. Structure 10(wt)

Experimental method

ELECTRON MICROSCOPY

Resolution

4 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACGAUG*UU

Length

23 nucleotides

Bulged bases

7SYP|1|2|A|672, 7SYP|1|2|A|1083, 7SYP|1|2|C|1085, 7SYP|1|2|A|1087

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_7SYP_002 not in the Motif Atlas

Homologous match to J4_8C3A_022

Geometric discrepancy: 0.1257

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

7SYP|1|2|A|671
7SYP|1|2|A|672
7SYP|1|2|G|673
*
7SYP|1|2|C|1032
7SYP|1|2|G|1033
7SYP|1|2|A|1034
7SYP|1|2|A|1035
7SYP|1|2|A|1036
7SYP|1|2|G|1037
*
7SYP|1|2|C|1078
7SYP|1|2|C|1079
7SYP|1|2|A|1080
7SYP|1|2|U|1081
7SYP|1|2|A|1082
7SYP|1|2|A|1083
7SYP|1|2|A|1084
7SYP|1|2|C|1085
7SYP|1|2|G|1086
7SYP|1|2|A|1087
7SYP|1|2|U|1088
7SYP|1|2|G|1089
*
7SYP|1|2|U|1160
7SYP|1|2|U|1161

Current chains

Chain 2

18S rRNA

Nearby chains

Chain M

uS17

Chain O

uS15

Chain P

uS11

Chain X

uS8

Chain Y

uS12

Chain b

eS26

Chain n

eL41