J3_8PVL_014

3D structure

PDB id

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

Description

Chaetomium thermophilum pre-60S State 7 - pre-5S rotation lacking Utp30/ITS2 - composite structure

Experimental method

ELECTRON MICROSCOPY

Resolution

2.19 Å

Loop

Sequence

CGAUAGCGCACAAGUAG*CGAAAG*CUUG

Length

27 nucleotides

Bulged bases

8PVL|1|C1|U|336, 8PVL|1|C1|A|344, 8PVL|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_8PVL_014 not in the Motif Atlas

Homologous match to J3_8P9A_045

Geometric discrepancy: 0.0535

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

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