J5_8B2L_006

3D structure

PDB id

8B2L (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the plant 80S ribosome

Experimental method

ELECTRON MICROSCOPY

Resolution

2.2 Å

Loop

Sequence

(PSU)UGA*UUUG*CA*(UY1)(OMG)*CAG(A2M)AAA

Length

19 nucleotides

Bulged bases

8B2L|1|A3|G|2421, 8B2L|1|A3|A|2802, 8B2L|1|A3|G|2803, 8B2L|1|A3|A2M|2804, 8B2L|1|A3|A|2805

QA status

Modified nucleotides: PSU, UY1, OMG, A2M

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

J5_8B2L_006 not in the Motif Atlas

Homologous match to J5_8P9A_015

Geometric discrepancy: 0.3249

The information below is about J5_8P9A_015

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J5_96125.2

Basepair signature

cWW-cWH-cWH-tSS-cWW-cWW-cWW-F-cWW

Number of instances in this motif group

7

Unit IDs

8B2L|1|A3|PSU|2419
8B2L|1|A3|U|2420
8B2L|1|A3|G|2421
8B2L|1|A3|A|2422
*
8B2L|1|A3|U|2614
8B2L|1|A3|U|2615
8B2L|1|A3|U|2616
8B2L|1|A3|G|2617
*
8B2L|1|A3|C|2630
8B2L|1|A3|A|2631
*
8B2L|1|A3|UY1|2653
8B2L|1|A3|OMG|2654
*
8B2L|1|A3|C|2801
8B2L|1|A3|A|2802
8B2L|1|A3|G|2803
8B2L|1|A3|A2M|2804
8B2L|1|A3|A|2805
8B2L|1|A3|A|2806
8B2L|1|A3|A|2807

Current chains

Chain A3

25S rRNA

Nearby chains

Chain F3

Ribosomal protein L15

Chain G3

60S ribosomal protein L18-2-like

Chain J3

60S ribosomal protein L21-1-like

Chain O3

60S ribosomal protein L29

Chain W2

Transfer RNA; tRNA

Chain Z3

60S ribosomal protein L44

Chain f3

uL15 (60S ribosomal protein L27a)

Chain o3

uL2 (60S ribosomal protein L8)