8HS4 | pdb_00008hs4

Brucella melitensis 7-alpha-Hydroxysteroid Dehydrogenase mutant: 1-53 truncation/K262T-NAD+

PDB DOI: https://doi.org/10.2210/pdb8HS4/pdb

Classification: OXIDOREDUCTASE
Organism(s): Brucella melitensis bv. 1 str. 16M
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2022-12-17 Released: 2023-12-27
Deposition Author(s): Liu, Z.Y., Zhang, R.Z.
Funding Organization(s): National Science Foundation (NSF, China)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free:
0.206 (Depositor), 0.210 (DCC)
R-Value Work:
0.176 (Depositor), 0.182 (DCC)
R-Value Observed:
0.178 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 8HS4

Ligand Structure Quality Assessment

This is version 1.0 of the entry. See complete history.

Literature

Structure of 7-alpha-hydroxysteroid dehydrogenase

Liu, Z.Y., Zhang, R.Z.

To be published.

Macromolecule Content

Total Structure Weight: 52.32 kDa
Atom Count: 3,639
Modeled Residue Count: 474
Deposited Residue Count: 498
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
7-alpha-hydroxysteroid dehydrogenase	A, B	249	Brucella melitensis bv. 1 str. 16M	Mutation(s): 0 Gene Names: BMEI0406 EC: 1.1.1.159
UniProt
Find proteins for Q8YIN7 (Brucella melitensis biotype 1 (strain ATCC 23456 / CCUG 17765 / NCTC 10094 / 16M)) Explore Q8YIN7 Go to UniProtKB: Q8YIN7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q8YIN7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD (Subject of Investigation/LOI) Query on NAD Download:Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain C [auth A] MOL2 format, chain D [auth B] MOL2 format, chain C [auth A] mmCIF format, chain D [auth B] mmCIF format, chain C [auth A]	C [auth A], D [auth B]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain C [auth A] Focus chain D [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.00 Å
R-Value Free: 0.206 (Depositor), 0.210 (DCC)
R-Value Work: 0.176 (Depositor), 0.182 (DCC)
R-Value Observed: 0.178 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 98.204	α = 90
b = 98.204	β = 90
c = 93.144	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
PHENIX	phasing

Structure Validation

View Full Validation Report

Ligand Structure Quality Assessment

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2023-12-27

Deposition Author(s):

Funding Organization	Location	Grant Number
National Science Foundation (NSF, China)	China	31970045
National Science Foundation (NSF, China)	China	32271487

Revision History (Full details and data files)

Version 1.0: 2023-12-27
Type: Initial release

RCSB PDB is hosted by

RCSB PDB is a member of

RCSB Partners
Nucleic Acid Knowledgebase

CoreTrustSeal

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.