J3_8PVK_014

3D structure

PDB id

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

Description

Chaetomium thermophilum pre-60S State 5 - pre-5S rotation - L1 inward - composite structure

Experimental method

ELECTRON MICROSCOPY

Resolution

2.55 Å

Loop

Sequence

CGAUAGCGCACAAGUAG*CGAAAG*CUUG

Length

27 nucleotides

Bulged bases

8PVK|1|C1|U|336, 8PVK|1|C1|A|344, 8PVK|1|C2|U|23

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_8PVK_014 not in the Motif Atlas

Homologous match to J3_8P9A_045

Geometric discrepancy: 0.054

The information below is about J3_8P9A_045

Detailed Annotation

No text annotation

Broad Annotation

No text annotation

Motif group

J3_07616.1

Basepair signature

cWW-cSS-tSS-tSW-tHW-cWW-tWH-F-F-tHH-tSS-tWH-F-tHS-cWW-F-cSH

Number of instances in this motif group

10

Unit IDs

8PVK|1|C1|C|333
8PVK|1|C1|G|334
8PVK|1|C1|A|335
8PVK|1|C1|U|336
8PVK|1|C1|A|337
8PVK|1|C1|G|338
8PVK|1|C1|C|339
8PVK|1|C1|G|340
8PVK|1|C1|C|341
8PVK|1|C1|A|342
8PVK|1|C1|C|343
8PVK|1|C1|A|344
8PVK|1|C1|A|345
8PVK|1|C1|G|346
8PVK|1|C1|U|347
8PVK|1|C1|A|348
8PVK|1|C1|G|349
*
8PVK|1|C1|C|356
8PVK|1|C1|G|357
8PVK|1|C1|A|358
8PVK|1|C1|A|359
8PVK|1|C1|A|360
8PVK|1|C1|G|361
*
8PVK|1|C2|C|21
8PVK|1|C2|U|22
8PVK|1|C2|U|23
8PVK|1|C2|G|24

Current chains

Chain C1

26S rRNA

Chain C2

5.8S rRNA

Nearby chains

Chain CH

Nucleolar GTP-binding protein 1

Chain LC

60S ribosomal protein L4-like protein

Chain LY

60S ribosomal protein L26-like protein

Chain Lj

Ribosomal protein L37

Chain Ll

Ribosomal protein eL39