3D structure

PDB id
6EM1 (explore in PDB, NAKB, or RNA 3D Hub)
Description
State C (Nsa1-TAP Flag-Ytm1) - Visualizing the assembly pathway of nucleolar pre-60S ribosomes
Experimental method
ELECTRON MICROSCOPY
Resolution
3.6 Å

Loop

Sequence
UAUC*GUU*ACUAAUA
Length
14 nucleotides
Bulged bases
6EM1|1|1|A|2887, 6EM1|1|1|U|2888
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_6EM1_005 not in the Motif Atlas
Homologous match to J3_8C3A_011
Geometric discrepancy: 0.1889
The information below is about J3_8C3A_011
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_98597.1
Basepair signature
cWW-tWW-cHW-tSH-cWW-tSS-F-cSS-cWW
Number of instances in this motif group
2

Unit IDs

6EM1|1|1|U|2886
6EM1|1|1|A|2887
6EM1|1|1|U|2888
6EM1|1|1|C|2889
*
6EM1|1|1|G|2914
6EM1|1|1|U|2915
6EM1|1|1|U|2916
*
6EM1|1|1|A|2930
6EM1|1|1|C|2931
6EM1|1|1|U|2932
6EM1|1|1|A|2933
6EM1|1|1|A|2934
6EM1|1|1|U|2935
6EM1|1|1|A|2936

Current chains

Chain 1
25S ribosomal RNA

Nearby chains

Chain O
60S ribosomal protein L16-A
Chain V
60S ribosomal protein L23-A
Chain b
Nucleolar GTP-binding protein 1
Chain r
Ribosome biogenesis protein NSA2
Chain s
Nuclear GTP-binding protein NUG1
Chain z
UPF0642 protein YBL028C

Coloring options:


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