J3_8INK_018

3D structure

PDB id

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

Description

human nuclear pre-60S ribosomal particle - State D

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

AGAUGG*CGUUCCGAAGGG*CGGCCGAU

Length

26 nucleotides

Bulged bases

8INK|1|2|C|2470, 8INK|1|2|A|2472, 8INK|1|2|G|2475, 8INK|1|2|G|2503, 8INK|1|2|C|2504, 8INK|1|2|C|2505

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_8INK_018 not in the Motif Atlas

Homologous match to J3_8C3A_053

Geometric discrepancy: 0.5881

The information below is about J3_8C3A_053

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_34234.1

Basepair signature

cWW-tSH-cSH-tWH-F-F-tHS-F-cWW-F-cWW-F-F-F-F

Number of instances in this motif group

1

Unit IDs

8INK|1|2|A|2451
8INK|1|2|G|2452
8INK|1|2|A|2453
8INK|1|2|U|2454
8INK|1|2|G|2455
8INK|1|2|G|2456
*
8INK|1|2|C|2465
8INK|1|2|G|2466
8INK|1|2|U|2467
8INK|1|2|U|2468
8INK|1|2|C|2469
8INK|1|2|C|2470
8INK|1|2|G|2471
8INK|1|2|A|2472
8INK|1|2|A|2473
8INK|1|2|G|2474
8INK|1|2|G|2475
8INK|1|2|G|2476
*
8INK|1|2|C|2501
8INK|1|2|G|2502
8INK|1|2|G|2503
8INK|1|2|C|2504
8INK|1|2|C|2505
8INK|1|2|G|2506
8INK|1|2|A|2507
8INK|1|2|U|2508

Current chains

Chain 2

28S rRNA

Nearby chains

Chain 8

5.8S ribosomal RNA; 5.8S rRNA

Chain G

60S ribosomal protein L7a

Chain M

60S ribosomal protein L37

Chain U

60S ribosomal protein L15

Chain g

60S ribosomal protein L23a

Chain m

60S ribosomal protein L8