3D structure

PDB id
8K2D (explore in PDB, NAKB, or RNA 3D Hub)
Description
Cryo-EM structure of the yeast 80S ribosome with tigecycline, eEF2, Stm1 and eIF5A
Experimental method
ELECTRON MICROSCOPY
Resolution
3.2 Å

Loop

Sequence
UG*UGUC*GAUAA
Length
11 nucleotides
Bulged bases
None detected
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_8K2D_040 not in the Motif Atlas
Homologous match to J3_8C3A_085
Geometric discrepancy: 0.0784
The information below is about J3_8C3A_085
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_76043.2
Basepair signature
cWW-F-F-F-F-tSS-cWW-cWW
Number of instances in this motif group
3

Unit IDs

8K2D|1|C2|U|1293
8K2D|1|C2|G|1294
*
8K2D|1|C2|U|1303
8K2D|1|C2|G|1304
8K2D|1|C2|U|1305
8K2D|1|C2|C|1306
*
8K2D|1|C2|G|1318
8K2D|1|C2|A|1319
8K2D|1|C2|U|1320
8K2D|1|C2|A|1321
8K2D|1|C2|A|1322

Current chains

Chain C2
18S rRNA

Nearby chains

Chain SA
Small ribosomal subunit protein uS2A
Chain SC
40S ribosomal protein S2
Chain SR
Small ribosomal subunit protein eS17A

Coloring options:


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