3D structure

PDB id
8CMJ (explore in PDB, NAKB, or RNA 3D Hub)
Description
Translocation intermediate 4 (TI-4*) of 80S S. cerevisiae ribosome with eEF2 in the absence of sordarin
Experimental method
ELECTRON MICROSCOPY
Resolution
3.79 Å

Loop

Sequence
GGAGU(OMC)*GGAC*GUUC*GC*GCAGAU(OMC)
Length
23 nucleotides
Bulged bases
8CMJ|1|AA|U|1436
QA status
Modified nucleotides: OMC

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_8CMJ_002 not in the Motif Atlas
Homologous match to J5_8P9A_011
Geometric discrepancy: 0.101
The information below is about J5_8P9A_011
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J5_63811.1
Basepair signature
cWW-tSH-tSS-tHW-F-cWS-F-tWS-cWW-cWW-F-cWW-cWW-F
Number of instances in this motif group
2

Unit IDs

8CMJ|1|AA|G|658
8CMJ|1|AA|G|659
8CMJ|1|AA|A|660
8CMJ|1|AA|G|661
8CMJ|1|AA|U|662
8CMJ|1|AA|OMC|663
*
8CMJ|1|AA|G|799
8CMJ|1|AA|G|800
8CMJ|1|AA|A|801
8CMJ|1|AA|C|802
*
8CMJ|1|AA|G|941
8CMJ|1|AA|U|942
8CMJ|1|AA|U|943
8CMJ|1|AA|C|944
*
8CMJ|1|AA|G|1375
8CMJ|1|AA|C|1376
*
8CMJ|1|AA|G|1431
8CMJ|1|AA|C|1432
8CMJ|1|AA|A|1433
8CMJ|1|AA|G|1434
8CMJ|1|AA|A|1435
8CMJ|1|AA|U|1436
8CMJ|1|AA|OMC|1437

Current chains

Chain AA
25S ribosomal RNA

Nearby chains

Chain CC
5.8S ribosomal RNA; 5.8S rRNA
Chain GG
60S ribosomal protein L4-A
Chain M
60S ribosomal protein L28
Chain OO
60S ribosomal protein L13-A
Chain Q
60S ribosomal protein L32
Chain QQ
60S ribosomal protein L15-A

Coloring options:


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