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
AUUG*CUUAU*AGACAUU
Length
16 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_007 not in the Motif Atlas
Geometric match to J3_4V9F_007
Geometric discrepancy: 0.2511
The information below is about J3_4V9F_007
Detailed Annotation
No text annotation
Broad Annotation
No text annotation
Motif group
J3_97609.1
Basepair signature
cWW-tSH-tHW-F-cWW-tHH-F-cWW-F
Number of instances in this motif group
1

Unit IDs

8K2D|1|C1|A|2432
8K2D|1|C1|U|2433
8K2D|1|C1|U|2434
8K2D|1|C1|G|2435
*
8K2D|1|C1|C|2512
8K2D|1|C1|U|2513
8K2D|1|C1|U|2514
8K2D|1|C1|A|2515
8K2D|1|C1|U|2516
*
8K2D|1|C1|A|2591
8K2D|1|C1|G|2592
8K2D|1|C1|A|2593
8K2D|1|C1|C|2594
8K2D|1|C1|A|2595
8K2D|1|C1|U|2596
8K2D|1|C1|U|2597

Current chains

Chain C1
23S rRNA

Nearby chains

Chain LA
Large ribosomal subunit protein uL2A
Chain LG
Large ribosomal subunit protein eL8A
Chain LN
Large ribosomal subunit protein eL15A
Chain Li
Large ribosomal subunit protein eL36A

Coloring options:


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