Download MendeleyStructural basis of 3-tRNA maturation by the human mitochondrial RNase Z complex
Valentin Gese, G., Hallberg, B.M.(2024) EMBO J
9GCH
Human mitochondrial RNase Z with tRNA-His-CCA, SDR5C1/TRMT10C focus
- PDB DOI: https://doi.org/10.2210/pdb9GCH/pdb
- EM Map EMD-51230: EMDB EMDataResource
- Classification: RNA BINDING PROTEIN
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2024-08-01 Released: 2024-11-20
- Funding Organization(s): Not funded
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 1.90 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
Starting Model: experimental
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wwPDB Validation 3D Report Full Report
This is version 1.0 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| 3-hydroxyacyl-CoA dehydrogenase type-2 | 261 | Homo sapiens | Mutation(s): 0 Gene Names: HSD17B10, ERAB, HADH2, MRPP2, SCHAD, SDR5C1, XH98G2 EC: 1.1.1.35 (PDB Primary Data), 1.1.1.62 (PDB Primary Data), 1.1.1.239 (PDB Primary Data), 1.1.1.178 (PDB Primary Data), 1.1.1.53 (PDB Primary Data), 1.1.1.159 (PDB Primary Data) |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q99714 (Homo sapiens) Explore Q99714 Go to UniProtKB: Q99714 | |||||
PHAROS: Q99714 GTEx: ENSG00000072506 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q99714 | ||||
Sequence AnnotationsExpand | |||||
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Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 2 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| tRNA methyltransferase 10 homolog C | E [auth F] | 356 | Homo sapiens | Mutation(s): 0 Gene Names: TRMT10C, MRPP1, RG9MTD1 EC: 2.1.1 (PDB Primary Data), 2.1.1.218 (PDB Primary Data), 2.1.1.221 (PDB Primary Data) |  |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for Q7L0Y3 (Homo sapiens) Explore Q7L0Y3 Go to UniProtKB: Q7L0Y3 | |||||
PHAROS: Q7L0Y3 GTEx: ENSG00000174173 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | Q7L0Y3 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Find similar nucleic acids by:
(by identity cutoff) | 3D Structure
Entity ID: 3 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| mt-tRNA-His-CCA | F [auth T] | 71 | Homo sapiens |  | |
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| GTP Query on GTP | H [auth T] | GUANOSINE-5'-TRIPHOSPHATE C10 H16 N5 O14 P3 XKMLYUALXHKNFT-UUOKFMHZSA-N |  | ||
| SAM (Subject of Investigation/LOI) Query on SAM | G [auth F] | S-ADENOSYLMETHIONINE C15 H22 N6 O5 S MEFKEPWMEQBLKI-FCKMPRQPSA-N |  | ||
| MG Query on MG | I [auth T] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 1.90 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
| Task | Software Package | Version |
|---|---|---|
| MODEL REFINEMENT | PHENIX | 1.20.1-4487 |
Entry History & Funding Information
Deposition Data
- Released Date: 2024-11-20 Deposition Author(s): Valentin Gese, G., Hallberg, B.M.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Not funded | -- |
Revision History (Full details and data files)
- Version 1.0: 2024-11-20
Type: Initial release
