3D structure

PDB id
6ZME (explore in PDB, NAKB, or RNA 3D Hub)
Description
SARS-CoV-2 Nsp1 bound to the human CCDC124-80S-eERF1 ribosome complex
Experimental method
ELECTRON MICROSCOPY
Resolution
3 Å

Loop

Sequence
AAG*CGAAAG*CCAUAAACGAUG*UU
Length
23 nucleotides
Bulged bases
6ZME|1|S2|A|672, 6ZME|1|S2|A|1083, 6ZME|1|S2|C|1085, 6ZME|1|S2|A|1087
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
J4_6ZME_015 not in the Motif Atlas
Homologous match to J4_8C3A_022
Geometric discrepancy: 0.0774
The information below is about J4_8C3A_022
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J4_61885.4
Basepair signature
cWW-cWW-cWW-F-F-tHW-F-F-F-F-F-cWW-F-F-F-F
Number of instances in this motif group
5

Unit IDs

6ZME|1|S2|A|671
6ZME|1|S2|A|672
6ZME|1|S2|G|673
*
6ZME|1|S2|C|1032
6ZME|1|S2|G|1033
6ZME|1|S2|A|1034
6ZME|1|S2|A|1035
6ZME|1|S2|A|1036
6ZME|1|S2|G|1037
*
6ZME|1|S2|C|1078
6ZME|1|S2|C|1079
6ZME|1|S2|A|1080
6ZME|1|S2|U|1081
6ZME|1|S2|A|1082
6ZME|1|S2|A|1083
6ZME|1|S2|A|1084
6ZME|1|S2|C|1085
6ZME|1|S2|G|1086
6ZME|1|S2|A|1087
6ZME|1|S2|U|1088
6ZME|1|S2|G|1089
*
6ZME|1|S2|U|1160
6ZME|1|S2|U|1161

Current chains

Chain S2
18S ribosomal RNA

Nearby chains

Chain L5
Large subunit ribosomal RNA; LSU rRNA
Chain Ln
60S ribosomal protein L41
Chain SL
40S ribosomal protein S11
Chain SN
40S ribosomal protein S13
Chain SO
40S ribosomal protein S14
Chain SW
40S ribosomal protein S15a
Chain SX
40S ribosomal protein S23
Chain Sa
40S ribosomal protein S26

Coloring options:


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