HL_5APO_007

3D structure

PDB id

5APO (explore in PDB, NAKB, or RNA 3D Hub)

Description

Structure of the yeast 60S ribosomal subunit in complex with Arx1, Alb1 and C-terminally tagged Rei1

Experimental method

ELECTRON MICROSCOPY

Resolution

3.41 Å

Loop

Sequence

GUGAGAAUC

Length

9 nucleotides

Bulged bases

5APO|1|5|G|218||||P_1, 5APO|1|5|A|219||||P_1, 5APO|1|5|G|220||||P_1

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

HL_5APO_007 not in the Motif Atlas

Homologous match to HL_5TBW_007

Geometric discrepancy: 0.0685

The information below is about HL_5TBW_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

5APO|1|5|G|216||||P_1
5APO|1|5|U|217||||P_1
5APO|1|5|G|218||||P_1
5APO|1|5|A|219||||P_1
5APO|1|5|G|220||||P_1
5APO|1|5|A|221||||P_1
5APO|1|5|A|222||||P_1
5APO|1|5|U|223||||P_1
5APO|1|5|C|224||||P_1

Current chains

Chain 5

25S ribosomal RNA

Nearby chains

Chain 8

5.8S ribosomal RNA; 5.8S rRNA

Chain C

60S ribosomal protein L4-A

Chain Y

60S ribosomal protein L26-A