J3_8IPD_019

3D structure

PDB id

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

Description

human nuclear pre-60S ribosomal particle - State C

Experimental method

ELECTRON MICROSCOPY

Resolution

3.2 Å

Loop

Sequence

AGAUGG*CGUUCCGAAGGG*CGGCCGAU

Length

26 nucleotides

Bulged bases

8IPD|1|2|C|2470, 8IPD|1|2|A|2472, 8IPD|1|2|G|2475, 8IPD|1|2|G|2503, 8IPD|1|2|C|2504, 8IPD|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_8IPD_019 not in the Motif Atlas

Homologous match to J3_8CRE_016

Geometric discrepancy: 0.5971

The information below is about J3_8CRE_016

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_65403.1

Basepair signature

cWW-tSH-tHW-F-F-F-tHS-F-cWW-F-cWW-F-F-F-F

Number of instances in this motif group

1

Unit IDs

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