5YAT

Crystal structure of mitochondrial alcohol dehydrogenase isozyme III from Komagataella phaffii GS115

PDB DOI: https://doi.org/10.2210/pdb5YAT/pdb

Classification: OXIDOREDUCTASE
Organism(s): Komagataella phaffii GS115
Expression System: Pichia
Mutation(s): No

Deposited: 2017-09-01 Released: 2018-03-21
Deposition Author(s): Zhang, H.D., Li, Q.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.75 Å
R-Value Free: 0.212
R-Value Work: 0.182
R-Value Observed: 0.184

wwPDB Validation 3D Report Full Report

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

Literature

Investigation of structure and function of mitochondrial alcohol dehydrogenase isozyme III from Komagataella phaffii GS115.

Zhang, H., Li, Q., Wang, L., Chen, Y.

(2018) Biochim Biophys Acta 1862: 1199-1208

PubMed: 29474823 Search on PubMed
DOI: https://doi.org/10.1016/j.bbagen.2018.02.012
Primary Citation of Related Structures:
5YAT

PubMed Abstract:
Alcohol dehydrogenases (ADHs) catalyze the reversible oxidation of alcohol using NAD ⁺ or NADP ⁺ as cofactor. Three ADH homologues have been identified in Komagataella phaffii GS115 (also named Pichia pastoris GS115), ADH1, ADH2 and ADH3, among which adh3 is the only gene responsible for consumption of ethanol in Komagataella phaffii GS115. However, the relationship between structure and function of mitochondrial alcohol dehydrogenase isozyme III from Komagataella phaffii GS115 (KpADH3) is still not clear yet.

Organizational Affiliation

Engineering Research Center of Industrial Microbiology, Ministry of Education; College of Life Sciences, Fujian Normal University, Fujian 350117, P. R. China; National United Engineering Research Center for Tibetan Plateau Microbiology, Tibet 850000, P. R. China. Electronic address: huaidongzhang@yahoo.com.

Macromolecule Content

Total Structure Weight: 74.83 kDa
Atom Count: 5,725
Modelled Residue Count: 694
Deposited Residue Count: 700
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mitochondrial alcohol dehydrogenase isozyme III	A, B	350	Komagataella phaffii GS115	Mutation(s): 0 Gene Names: PAS_chr2-1_0472
UniProt
Find proteins for C4R0S8 (Komagataella phaffii (strain GS115 / ATCC 20864)) Explore C4R0S8 Go to UniProtKB: C4R0S8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	C4R0S8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain C [auth A] SDF format, chain D [auth A] SDF format, chain H [auth B] SDF format, chain I [auth B] MOL2 format, chain C [auth A] MOL2 format, chain D [auth A] MOL2 format, chain H [auth B] MOL2 format, chain I [auth B]	C [auth A], D [auth A], H [auth B], I [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain H [auth B] Focus chain I [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain H [auth B] Focus chain I [auth B]
ZN Query on ZN Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain K [auth B] SDF format, chain L [auth B] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain K [auth B] MOL2 format, chain L [auth B]	F [auth A], G [auth A], K [auth B], L [auth B]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain K [auth B] Focus chain L [auth B] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain K [auth B] Focus chain L [auth B]
IPA Query on IPA Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain J [auth B] MOL2 format, chain E [auth A] MOL2 format, chain J [auth B]	E [auth A], J [auth B]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain J [auth B] Interactions & Density Focus chain E [auth A] Focus chain J [auth B]