3D structure

PDB id
5DGV (explore in PDB, NAKB, or RNA 3D Hub)
Description
Complex of yeast 80S ribosome with hypusine-containing/non-modified eIF5A and/or a peptidyl-tRNA analog
Experimental method
X-RAY DIFFRACTION
Resolution
3.1 Å

Loop

Sequence
AGGGCAAG*CU
Length
10 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
IL_5DGV_398 not in the Motif Atlas
Geometric match to IL_4V88_413
Geometric discrepancy: 0.069
The information below is about IL_4V88_413
Detailed Annotation
SSU/LSU pseudoknot
Broad Annotation
No text annotation
Motif group
IL_41203.1
Basepair signature
cWW-L-cWW-L-L-R-cSH
Number of instances in this motif group
10

Unit IDs

5DGV|1|6|A|550
5DGV|1|6|G|551
5DGV|1|6|G|552
5DGV|1|6|G|553
5DGV|1|6|C|554
5DGV|1|6|A|555
5DGV|1|6|A|556
5DGV|1|6|G|557
*
5DGV|1|6|C|587
5DGV|1|6|U|588

Current chains

Chain 6
Saccharomyces cerevisiae S288c RDN37-1 miscRNA

Nearby chains

Chain e0
40S ribosomal protein S30-A
Chain s2
40S ribosomal protein S2
Chain s9
40S ribosomal protein S9-A

Coloring options:


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