J3_8PV4_014

3D structure

PDB id

8PV4 (explore in PDB, NAKB, or RNA 3D Hub)

Description

Chaetomium thermophilum pre-60S State 2 - pre-5S rotation with Rix1 complex - composite structure

Experimental method

ELECTRON MICROSCOPY

Resolution

2.9 Å

Loop

Sequence

CGAUAGCGCACAAGUAG*CGAAAG*CUUG

Length

27 nucleotides

Bulged bases

8PV4|1|C1|U|336, 8PV4|1|C1|A|344, 8PV4|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_8PV4_014 not in the Motif Atlas

Homologous match to J3_8P9A_045

Geometric discrepancy: 0.0617

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

8PV4|1|C1|C|333
8PV4|1|C1|G|334
8PV4|1|C1|A|335
8PV4|1|C1|U|336
8PV4|1|C1|A|337
8PV4|1|C1|G|338
8PV4|1|C1|C|339
8PV4|1|C1|G|340
8PV4|1|C1|C|341
8PV4|1|C1|A|342
8PV4|1|C1|C|343
8PV4|1|C1|A|344
8PV4|1|C1|A|345
8PV4|1|C1|G|346
8PV4|1|C1|U|347
8PV4|1|C1|A|348
8PV4|1|C1|G|349
*
8PV4|1|C1|C|356
8PV4|1|C1|G|357
8PV4|1|C1|A|358
8PV4|1|C1|A|359
8PV4|1|C1|A|360
8PV4|1|C1|G|361
*
8PV4|1|C2|C|21
8PV4|1|C2|U|22
8PV4|1|C2|U|23
8PV4|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