J3_6IP5_033

3D structure

PDB id

6IP5 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Cryo-EM structure of the CMV-stalled human 80S ribosome (Structure ii)

Experimental method

ELECTRON MICROSCOPY

Resolution

3.9 Å

Loop

Sequence

AGAUGG*CGUUCCGAAGGG*CGGCCGAU

Length

26 nucleotides

Bulged bases

6IP5|1|1A|C|2470, 6IP5|1|1A|A|2472, 6IP5|1|1A|G|2475, 6IP5|1|1A|G|2503, 6IP5|1|1A|C|2504

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_6IP5_033 not in the Motif Atlas

Homologous match to J3_8C3A_053

Geometric discrepancy: 0.5879

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

6IP5|1|1A|A|2451
6IP5|1|1A|G|2452
6IP5|1|1A|A|2453
6IP5|1|1A|U|2454
6IP5|1|1A|G|2455
6IP5|1|1A|G|2456
*
6IP5|1|1A|C|2465
6IP5|1|1A|G|2466
6IP5|1|1A|U|2467
6IP5|1|1A|U|2468
6IP5|1|1A|C|2469
6IP5|1|1A|C|2470
6IP5|1|1A|G|2471
6IP5|1|1A|A|2472
6IP5|1|1A|A|2473
6IP5|1|1A|G|2474
6IP5|1|1A|G|2475
6IP5|1|1A|G|2476
*
6IP5|1|1A|C|2501
6IP5|1|1A|G|2502
6IP5|1|1A|G|2503
6IP5|1|1A|C|2504
6IP5|1|1A|C|2505
6IP5|1|1A|G|2506
6IP5|1|1A|A|2507
6IP5|1|1A|U|2508

Current chains

Chain 1A

28S ribosomal RNA

Nearby chains

Chain 1C

5.8S ribosomal RNA; 5.8S rRNA

Chain 1D

60S ribosomal protein L8

Chain 2B

60S ribosomal protein L7a

Chain 2H

60S ribosomal protein L15

Chain 2R

60S ribosomal protein L23a

Chain 2d

60S ribosomal protein L37