J4_6P4H_002

3D structure

PDB id

6P4H (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of a mammalian small ribosomal subunit in complex with the Israeli Acute Paralysis Virus IRES (Class 2)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

AAG*CGAAAG*CCAUAAACGAUG*UU

Length

23 nucleotides

Bulged bases

6P4H|1|2|A|672, 6P4H|1|2|A|1083, 6P4H|1|2|C|1085, 6P4H|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_6P4H_002 not in the Motif Atlas

Homologous match to J4_8P9A_022

Geometric discrepancy: 0.0745

The information below is about J4_8P9A_022

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J4_14595.1

Basepair signature

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

Number of instances in this motif group

5

Unit IDs

6P4H|1|2|A|671
6P4H|1|2|A|672
6P4H|1|2|G|673
*
6P4H|1|2|C|1032
6P4H|1|2|G|1033
6P4H|1|2|A|1034
6P4H|1|2|A|1035
6P4H|1|2|A|1036
6P4H|1|2|G|1037
*
6P4H|1|2|C|1078
6P4H|1|2|C|1079
6P4H|1|2|A|1080
6P4H|1|2|U|1081
6P4H|1|2|A|1082
6P4H|1|2|A|1083
6P4H|1|2|A|1084
6P4H|1|2|C|1085
6P4H|1|2|G|1086
6P4H|1|2|A|1087
6P4H|1|2|U|1088
6P4H|1|2|G|1089
*
6P4H|1|2|U|1160
6P4H|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