3OHS | pdb_00003ohs

Crystal Structure of Mammalian Dimeric Dihydrodiol Dehydrogenase in complex with Dihydroxyacetone

PDB DOI: https://doi.org/10.2210/pdb3OHS/pdb

Classification: OXIDOREDUCTASE
Organism(s): Macaca fascicularis
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2010-08-18 Released: 2011-08-24
Deposition Author(s): Zhao, H.-T., El-Kabbani, O.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free:
0.205 (Depositor), 0.182 (DCC)
R-Value Work:
0.161 (Depositor), 0.184 (DCC)
R-Value Observed:
0.163 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of MDD in complex with Dihydroxyacetone

Zhao, H.-T., El-Kabbani, O., Hara, A.

To be published.

Macromolecule Content

Total Structure Weight: 37.42 kDa
Atom Count: 3,211
Modeled Residue Count: 331
Deposited Residue Count: 334
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Trans-1,2-dihydrobenzene-1,2-diol dehydrogenase	A [auth X]	334	Macaca fascicularis	Mutation(s): 0 Gene Names: DHDH, 2DD EC: 1.3.1.20 (PDB Primary Data), 1.1.1.179 (PDB Primary Data)
UniProt
Find proteins for Q9TQS6 (Macaca fascicularis) Explore Q9TQS6 Go to UniProtKB: Q9TQS6
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9TQS6
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
SO4 Query on SO4 Download:Ideal Coordinates CCD File SDF format, chain B [auth X] SDF format, chain C [auth X] SDF format, chain E [auth X] SDF format, chain H [auth X] SDF format, chain I [auth X] SDF format, chain G [auth X] SDF format, chain F [auth X] SDF format, chain D [auth X] MOL2 format, chain B [auth X] MOL2 format, chain C [auth X] MOL2 format, chain E [auth X] MOL2 format, chain H [auth X] MOL2 format, chain I [auth X] MOL2 format, chain G [auth X] MOL2 format, chain F [auth X] MOL2 format, chain D [auth X] mmCIF format, chain B [auth X] mmCIF format, chain C [auth X] mmCIF format, chain E [auth X] mmCIF format, chain H [auth X] mmCIF format, chain I [auth X] mmCIF format, chain G [auth X] mmCIF format, chain F [auth X] mmCIF format, chain D [auth X]	B [auth X] C [auth X] D [auth X] E [auth X] F [auth X] B [auth X], C [auth X], D [auth X], E [auth X], F [auth X], G [auth X], H [auth X], I [auth X]	SULFATE ION O₄ S QAOWNCQODCNURD-UHFFFAOYSA-L		Interactions Focus chain B [auth X] Focus chain C [auth X] Focus chain D [auth X] Focus chain E [auth X] Focus chain F [auth X] Focus chain G [auth X] Focus chain H [auth X] Focus chain I [auth X] Interactions & Density Focus chain B [auth X] Focus chain C [auth X] Focus chain D [auth X] Focus chain E [auth X] Focus chain F [auth X] Focus chain G [auth X] Focus chain H [auth X] Focus chain I [auth X]
2HA Query on 2HA Download:Ideal Coordinates CCD File SDF format, chain K [auth X] MOL2 format, chain K [auth X] mmCIF format, chain K [auth X]	K [auth X]	Dihydroxyacetone C₃ H₆ O₃ RXKJFZQQPQGTFL-UHFFFAOYSA-N		Interactions Focus chain K [auth X] Interactions & Density Focus chain K [auth X]
BME Query on BME Download:Ideal Coordinates CCD File SDF format, chain J [auth X] MOL2 format, chain J [auth X] mmCIF format, chain J [auth X]	J [auth X]	BETA-MERCAPTOETHANOL C₂ H₆ O S DGVVWUTYPXICAM-UHFFFAOYSA-N		Interactions Focus chain J [auth X] Interactions & Density Focus chain J [auth X]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.90 Å
R-Value Free: 0.205 (Depositor), 0.182 (DCC)
R-Value Work: 0.161 (Depositor), 0.184 (DCC)
R-Value Observed: 0.163 (Depositor)

Space Group: P 6₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 122.446	α = 90
b = 122.446	β = 90
c = 121.388	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
MOLREP	phasing
REFMAC	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2011-08-24

Deposition Author(s):

Zhao, H.-T.

El-Kabbani, O.

Revision History (Full details and data files)

Version 1.0: 2011-08-24
Type: Initial release
Version 1.1: 2023-11-01
Changes: Data collection, Database references, Derived calculations, Refinement description, Structure summary

3OHS | pdb_00003ohs

Crystal Structure of Mammalian Dimeric Dihydrodiol Dehydrogenase in complex with Dihydroxyacetone

Literature

Crystal structure of MDD in complex with Dihydroxyacetone

Biological Assembly 1

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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