3D structure

PDB id
6XIR (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM Structure of K63 Ubiquitinated Yeast Translocating Ribosome under Oxidative Stress
Experimental method
ELECTRON MICROSCOPY
Resolution
3.2 Å

Loop

Sequence
GGAGUC*GGAC*GUUC*GC*GCAGAUC
Length
23 nucleotides
Bulged bases
6XIR|1|1|U|1436
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
J5_6XIR_002 not in the Motif Atlas
Homologous match to J5_8C3A_002
Geometric discrepancy: 0.0721
The information below is about J5_8C3A_002
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

6XIR|1|1|G|658
6XIR|1|1|G|659
6XIR|1|1|A|660
6XIR|1|1|G|661
6XIR|1|1|U|662
6XIR|1|1|C|663
*
6XIR|1|1|G|799
6XIR|1|1|G|800
6XIR|1|1|A|801
6XIR|1|1|C|802
*
6XIR|1|1|G|941
6XIR|1|1|U|942
6XIR|1|1|U|943
6XIR|1|1|C|944
*
6XIR|1|1|G|1375
6XIR|1|1|C|1376
*
6XIR|1|1|G|1431
6XIR|1|1|C|1432
6XIR|1|1|A|1433
6XIR|1|1|G|1434
6XIR|1|1|A|1435
6XIR|1|1|U|1436
6XIR|1|1|C|1437

Current chains

Chain 1
35S ribosomal RNA

Nearby chains

Chain 4
5.8S ribosomal RNA; 5.8S rRNA
Chain C
RPL4A isoform 1
Chain L
60S ribosomal protein L13-A
Chain N
60S ribosomal protein L15-A
Chain a
60S ribosomal protein L28
Chain e
RPL32 isoform 1

Coloring options:


Copyright 2025 BGSU RNA group. Page generated in 0.2773 s