3D structure

PDB id
4D5L (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structures of ribosomal 80S complexes with termination factors and cricket paralysis virus IRES reveal the IRES in the translocated state
Experimental method
ELECTRON MICROSCOPY
Resolution
9 Å

Loop

Sequence
GUUAAAAAG*CGAAAG*CCAUAAACGAUG*UUC
Length
30 nucleotides
Bulged bases
4D5L|1|1|A|668, 4D5L|1|1|A|672, 4D5L|1|1|A|1083, 4D5L|1|1|G|1086, 4D5L|1|1|U|1088
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
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
Not in a motif group
Basepair signature
Not available
Number of instances in this motif group
0

Unit IDs

4D5L|1|1|G|665
4D5L|1|1|U|666
4D5L|1|1|U|667
4D5L|1|1|A|668
4D5L|1|1|A|669
4D5L|1|1|A|670
4D5L|1|1|A|671
4D5L|1|1|A|672
4D5L|1|1|G|673
*
4D5L|1|1|C|1032
4D5L|1|1|G|1033
4D5L|1|1|A|1034
4D5L|1|1|A|1035
4D5L|1|1|A|1036
4D5L|1|1|G|1037
*
4D5L|1|1|C|1078
4D5L|1|1|C|1079
4D5L|1|1|A|1080
4D5L|1|1|U|1081
4D5L|1|1|A|1082
4D5L|1|1|A|1083
4D5L|1|1|A|1084
4D5L|1|1|C|1085
4D5L|1|1|G|1086
4D5L|1|1|A|1087
4D5L|1|1|U|1088
4D5L|1|1|G|1089
*
4D5L|1|1|U|1160
4D5L|1|1|U|1161
4D5L|1|1|C|1162

Current chains

Chain 1
18S RRNA 2

Nearby chains

Chain C
40S RIBOSOMAL PROTEIN ES28
Chain L
40S RIBOSOMAL PROTEIN US17
Chain N
40S RIBOSOMAL PROTEIN US15
Chain W
40S RIBOSOMAL PROTEIN US8
Chain X
40S RIBOSOMAL PROTEIN US12
Chain a
40S RIBOSOMAL PROTEIN US2

Coloring options:

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