IL_7OYD_022

3D structure

PDB id

7OYD (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of a rabbit 80S ribosome with zebrafish Dap1b

Experimental method

ELECTRON MICROSCOPY

Resolution

2.3 Å

Loop

Sequence

GG*CGACC

Length

7 nucleotides

Bulged bases

7OYD|1|5|G|666, 7OYD|1|5|A|667, 7OYD|1|5|C|668

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_7OYD_022 not in the Motif Atlas

Geometric match to IL_1NBS_009

Geometric discrepancy: 0.2304

The information below is about IL_1NBS_009

Detailed Annotation

Major groove intercalation

Broad Annotation

Major groove intercalation

Motif group

IL_82107.5

Basepair signature

cWW-cWW

Number of instances in this motif group

31

Unit IDs

7OYD|1|5|G|487
7OYD|1|5|G|488
*
7OYD|1|5|C|665
7OYD|1|5|G|666
7OYD|1|5|A|667
7OYD|1|5|C|668
7OYD|1|5|C|669

Current chains

Chain 5

28S rRNA

Nearby chains

Chain C

60S ribosomal protein L4

Chain Q

RPL18

Chain r

eL28