IL_9VXN_114

3D structure

PDB id

9VXN (explore in PDB, NAKB, or RNA 3D Hub)

Description

Human cytosolic ribosome in a rotated state, with multiple neomycin molecules bound, featuring A/P-site and P/E-site tRNAs

Experimental method

ELECTRON MICROSCOPY

Resolution

2.51 Å

Loop

Sequence

C(5MC)AA(A2M)UGCCUC(OMG)*(OMC)GCG

Length

16 nucleotides

Bulged bases

9VXN|1|L5|A2M|3785, 9VXN|1|L5|C|3791, 9VXN|1|L5|C|3810

QA status

Modified nucleotides: 5MC, A2M, OMG, OMC

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_9VXN_114 not in the Motif Atlas

Homologous match to IL_9H3G_099

Geometric discrepancy: 0.0615

The information below is about IL_9H3G_099

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

IL_84014.4

Basepair signature

cWW-L-tHH-cHW-cWW-L-L-R-L

Number of instances in this motif group

10

Unit IDs

9VXN|1|L5|C|3781
9VXN|1|L5|5MC|3782
9VXN|1|L5|A|3783
9VXN|1|L5|A|3784
9VXN|1|L5|A2M|3785
9VXN|1|L5|U|3786
9VXN|1|L5|G|3787
9VXN|1|L5|C|3788
9VXN|1|L5|C|3789
9VXN|1|L5|U|3790
9VXN|1|L5|C|3791
9VXN|1|L5|OMG|3792
*
9VXN|1|L5|OMC|3808
9VXN|1|L5|G|3809
9VXN|1|L5|C|3810
9VXN|1|L5|G|3811

Current chains

Chain L5

28S rRNA

Nearby chains

Chain Ln

Small ribosomal subunit protein eS32

Chain S2

Small subunit ribosomal RNA; SSU rRNA