HL_7OYD_007

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

GUGUGAG(B9B)C

Length

9 nucleotides

Bulged bases

7OYD|1|5|G|232, 7OYD|1|5|G|236

QA status

Modified nucleotides: B9B

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

HL_7OYD_007 not in the Motif Atlas

Homologous match to HL_8C3A_007

Geometric discrepancy: 0.409

The information below is about HL_8C3A_007

Detailed Annotation

T-loop with unstacked turn

Broad Annotation

T-loop

Motif group

HL_08002.12

Basepair signature

cWW-cWW-F-tWH

Number of instances in this motif group

16

Unit IDs

7OYD|1|5|G|230
7OYD|1|5|U|231
7OYD|1|5|G|232
7OYD|1|5|U|233
7OYD|1|5|G|234
7OYD|1|5|A|235
7OYD|1|5|G|236
7OYD|1|5|B9B|237
7OYD|1|5|C|238

Current chains

Chain 5

28S rRNA

Nearby chains

Chain 8

5.8S ribosomal RNA; 5.8S rRNA

Chain C

60S ribosomal protein L4

Chain Y

Ribosomal protein L26