4CPD | pdb_00004cpd

Alcohol dehydrogenase TADH from Thermus sp. ATN1

PDB DOI: https://doi.org/10.2210/pdb4CPD/pdb

Classification: OXIDOREDUCTASE
Organism(s): Thermus sp. ATN1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2014-02-05 Released: 2014-12-17
Deposition Author(s): Man, H., Gargulio, S., Frank, A., Hollmann, F., Grogan, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.74 Å
R-Value Free:
0.248 (Depositor), 0.250 (DCC)
R-Value Work:
0.192 (Depositor), 0.197 (DCC)
R-Value Observed:
0.194 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structure of the Nadh-Dependent Thermostable Alcohol Dehydrogenase Tadh from Thermus Sp. Atn1 Provides a Platform for Engineering Specificity and Improved Compatibility with Inorganic Cofactor-Regeneration Catalysts

Man, H., Gargulio, S., Frank, A., Hollmann, F., Grogan, G.

(2014) J Mol Catal B Enzym 105: 1

DOI: https://doi.org/10.1016/J.MOLCATB.2014.03.013

Macromolecule Content

Total Structure Weight: 151.43 kDa
Atom Count: 10,370
Modeled Residue Count: 1,375
Deposited Residue Count: 1,388
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ALCOHOL DEHYDROGENASE	A, B, C, D	347	Thermus sp. ATN1	Mutation(s): 0 EC: 1.1.1.1
UniProt
Find proteins for B2ZRE3 (Thermus sp. ATN1) Explore B2ZRE3 Go to UniProtKB: B2ZRE3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B2ZRE3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAD Query on NAD Download:Ideal Coordinates CCD File SDF format, chain O [auth D] SDF format, chain L [auth C] SDF format, chain G [auth A] MOL2 format, chain O [auth D] MOL2 format, chain L [auth C] MOL2 format, chain G [auth A] mmCIF format, chain O [auth D] mmCIF format, chain L [auth C] mmCIF format, chain G [auth A]	G [auth A], L [auth C], O [auth D]	NICOTINAMIDE-ADENINE-DINUCLEOTIDE C₂₁ H₂₇ N₇ O₁₄ P₂ BAWFJGJZGIEFAR-NNYOXOHSSA-N		Interactions Focus chain G [auth A] Focus chain L [auth C] Focus chain O [auth D] Interactions & Density Focus chain G [auth A] Focus chain L [auth C] Focus chain O [auth D]
ZN Query on ZN Download:Ideal Coordinates CCD File SDF format, chain N [auth D] SDF format, chain M [auth D] SDF format, chain K [auth C] SDF format, chain J [auth C] SDF format, chain I [auth B] SDF format, chain H [auth B] SDF format, chain F [auth A] SDF format, chain E [auth A] MOL2 format, chain N [auth D] MOL2 format, chain M [auth D] MOL2 format, chain K [auth C] MOL2 format, chain J [auth C] MOL2 format, chain I [auth B] MOL2 format, chain H [auth B] MOL2 format, chain F [auth A] MOL2 format, chain E [auth A] mmCIF format, chain N [auth D] mmCIF format, chain M [auth D] mmCIF format, chain K [auth C] mmCIF format, chain J [auth C] mmCIF format, chain I [auth B] mmCIF format, chain H [auth B] mmCIF format, chain F [auth A] mmCIF format, chain E [auth A]	E [auth A] F [auth A] H [auth B] I [auth B] J [auth C] E [auth A], F [auth A], H [auth B], I [auth B], J [auth C], K [auth C], M [auth D], N [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth C] Focus chain M [auth D] Focus chain N [auth D] Interactions & Density Focus chain E [auth A] Focus chain F [auth A] Focus chain H [auth B] Focus chain I [auth B] Focus chain J [auth C] Focus chain K [auth C] Focus chain M [auth D] Focus chain N [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.74 Å
R-Value Free: 0.248 (Depositor), 0.250 (DCC)
R-Value Work: 0.192 (Depositor), 0.197 (DCC)
R-Value Observed: 0.194 (Depositor)

Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.367	α = 90
b = 87.367	β = 90
c = 337.56	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
SCALA	data scaling
BALBES	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2014-12-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2014-12-17
Type: Initial release
Version 1.1: 2023-12-20
Changes: Data collection, Database references, Derived calculations, Other, Refinement description

4CPD | pdb_00004cpd

Alcohol dehydrogenase TADH from Thermus sp. ATN1

Literature

Structure of the Nadh-Dependent Thermostable Alcohol Dehydrogenase Tadh from Thermus Sp. Atn1 Provides a Platform for Engineering Specificity and Improved Compatibility with Inorganic Cofactor-Regeneration Catalysts

Biological Assembly 1

Biological Assembly 2

Macromolecules

Entity ID: 1

UniProt

Entity Groups

Sequence Annotations

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