7RRL | pdb_00007rrl

Alternate Crystal Form of Human Malate Dehydrogenase I

PDB DOI: https://doi.org/10.2210/pdb7RRL/pdb

Classification: OXIDOREDUCTASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-08-09 Released: 2022-02-16
Deposition Author(s): McCue, W., Finzel, B.C.
Funding Organization(s): Not funded

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free:
0.237 (Depositor), 0.241 (DCC)
R-Value Work:
0.186 (Depositor)
R-Value Observed:
0.189 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 7RRL

This is version 1.1 of the entry. See complete history.

Literature

Structural Studies to Enable Drug Discovery

(2021) Ph D Thesis,university Of Minnesota

Macromolecule Content

Total Structure Weight: 72.94 kDa
Atom Count: 5,057
Modeled Residue Count: 655
Deposited Residue Count: 668
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Malate dehydrogenase, cytoplasmic	A, B	334	Homo sapiens	Mutation(s): 0 Gene Names: MDH1, MDHA EC: 1.1.1.37 (PDB Primary Data), 1.1.1.96 (PDB Primary Data)
UniProt & NIH Common Fund Data Resources
Find proteins for P40925 (Homo sapiens) Explore P40925 Go to UniProtKB: P40925
PHAROS: P40925 GTEx: ENSG00000014641
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P40925
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.05 Å
R-Value Free: 0.237 (Depositor), 0.241 (DCC)
R-Value Work: 0.186 (Depositor)
R-Value Observed: 0.189 (Depositor)

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.875	α = 90
b = 62.593	β = 91.219
c = 74.322	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
Aimless	data scaling
PDB_EXTRACT	data extraction
JDirector	data collection
PHASER	phasing
AutoProcess	data processing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2022-02-16

Deposition Author(s):

Funding Organization	Location	Grant Number
Not funded		--

Revision History (Full details and data files)

Version 1.0: 2022-02-16
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Refinement description

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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.