3D structure

PDB id
6P5K (explore in PDB, NAKB, or RNA 3D Hub)
Description
Structure of a mammalian 80S ribosome in complex with the Israeli Acute Paralysis Virus IRES (Class 3)
Experimental method
ELECTRON MICROSCOPY
Resolution
3.1 Å

Loop

Sequence
UUGAAAAGAAC*GAGUUCAAGAGGGCG*CA
Length
28 nucleotides
Bulged bases
6P5K|1|5|G|409, 6P5K|1|5|G|413
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
J3_6P5K_040 not in the Motif Atlas
Homologous match to J3_8C3A_049
Geometric discrepancy: 0.3105
The information below is about J3_8C3A_049
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_91149.1
Basepair signature
cWW-cWS-tSH-F-tWH-cSS-cWW-tSS-tSH-tSH-tWW-tHH-tWH-tWW-F-F-cSS-F-cWW-cWW
Number of instances in this motif group
6

Unit IDs

6P5K|1|5|U|380
6P5K|1|5|U|381
6P5K|1|5|G|382
6P5K|1|5|A|383
6P5K|1|5|A|384
6P5K|1|5|A|385
6P5K|1|5|A|386
6P5K|1|5|G|387
6P5K|1|5|A|388
6P5K|1|5|A|389
6P5K|1|5|C|390
*
6P5K|1|5|G|401
6P5K|1|5|A|402
6P5K|1|5|G|403
6P5K|1|5|U|404
6P5K|1|5|U|405
6P5K|1|5|C|406
6P5K|1|5|A|407
6P5K|1|5|A|408
6P5K|1|5|G|409
6P5K|1|5|A|410
6P5K|1|5|G|411
6P5K|1|5|G|412
6P5K|1|5|G|413
6P5K|1|5|C|414
6P5K|1|5|G|415
*
6P5K|1|8|C|19
6P5K|1|8|A|20

Current chains

Chain 5
28S rRNA
Chain 8
5.8S rRNA

Nearby chains

Chain AC
uL4
Chain AP
uL22
Chain AY
uL24
Chain Al
eL39

Coloring options:


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