8D45 | pdb_00008d45

Cryo-EM structure of human Kidney Betaine-Homocysteine Methyltransferase

PDB DOI: https://doi.org/10.2210/pdb8D45/pdb
EM Map EMD-27175: EMDB EMDataResource

Classification: HYDROLASE
Organism(s): Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2022-06-01 Released: 2022-11-16
Deposition Author(s): Lyu, M., Yu, E.W.
Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.62 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

wwPDB Validation 3D Report Full Report

Validation slider image for 8D45

This is version 1.2 of the entry. See complete history.

Literature

Cryo-EM structure of human Kidney Betaine-Homocysteine Methyltransferase

Lyu, M., Yu, E.W.

To be published.

Macromolecule Content

Total Structure Weight: 180.24 kDa
Atom Count: 10,562
Modeled Residue Count: 1,358
Deposited Residue Count: 1,624
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Betaine--homocysteine S-methyltransferase 1	A, B, C, D	406	Homo sapiens	Mutation(s): 0 Gene Names: BHMT EC: 2.1.1.5
UniProt & NIH Common Fund Data Resources
Find proteins for Q93088 (Homo sapiens) Explore Q93088 Go to UniProtKB: Q93088
PHAROS: Q93088 GTEx: ENSG00000145692
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q93088
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 2.62 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX

Structure Validation

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View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2022-11-16

Deposition Author(s):

Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	--

Revision History (Full details and data files)

Version 1.0: 2022-11-16
Type: Initial release
Version 1.1: 2024-06-12
Changes: Data collection
Version 1.2: 2025-05-28
Changes: Data collection, Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.