J3_8P8M_008

3D structure

PDB id

8P8M (explore in PDB, NAKB, or RNA 3D Hub)

Description

Yeast 60S ribosomal subunit, RPL39 deletion

Experimental method

ELECTRON MICROSCOPY

Resolution

2.66 Å

Loop

Sequence

AGCU*ACGUUCUAGCAUUCAAG*UGAU

Length

25 nucleotides

Bulged bases

8P8M|1|A|G|2549, 8P8M|1|A|U|2550, 8P8M|1|A|U|2551, 8P8M|1|A|A|2554, 8P8M|1|A|U|2558, 8P8M|1|A|U|2559, 8P8M|1|A|C|2560

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

J3_8P8M_008 not in the Motif Atlas

Homologous match to J3_8C3A_009

Geometric discrepancy: 0.1655

The information below is about J3_8C3A_009

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_02167.1

Basepair signature

cWW-F-F-F-F-F-cWW-F-tHH-tHS-cWW

Number of instances in this motif group

1

Unit IDs

8P8M|1|A|A|2529
8P8M|1|A|G|2530
8P8M|1|A|C|2531
8P8M|1|A|U|2532
*
8P8M|1|A|A|2547
8P8M|1|A|C|2548
8P8M|1|A|G|2549
8P8M|1|A|U|2550
8P8M|1|A|U|2551
8P8M|1|A|C|2552
8P8M|1|A|U|2553
8P8M|1|A|A|2554
8P8M|1|A|G|2555
8P8M|1|A|C|2556
8P8M|1|A|A|2557
8P8M|1|A|U|2558
8P8M|1|A|U|2559
8P8M|1|A|C|2560
8P8M|1|A|A|2561
8P8M|1|A|A|2562
8P8M|1|A|G|2563
*
8P8M|1|A|U|2578
8P8M|1|A|G|2579
8P8M|1|A|A|2580
8P8M|1|A|U|2581

Current chains

Chain A

25S rRNA

Nearby chains

Chain LF

60S ribosomal protein L2-A

Chain LL

60S ribosomal protein L8-A

Chain QX

60S ribosomal protein L25

Chain QZ

60S ribosomal protein L27-A

Chain RC

60S ribosomal protein L30

Chain RG

60S ribosomal protein L34-A

Chain RT

60S ribosomal protein L43-A