7C3V | pdb_00007c3v

Structure of a thermostable Alcohol dehydrogenase from Kluyveromyces polyspora(KpADH)

PDB DOI: https://doi.org/10.2210/pdb7C3V/pdb

Classification: OXIDOREDUCTASE
Organism(s): Kluyveromyces sp. CCTCC M2011385
Expression System: Escherichia coli 'BL21-Gold(DE3)pLysS AG
Mutation(s): No

Deposited: 2020-05-14 Released: 2021-05-19
Deposition Author(s): Dai, W., Ni, Y., Xu, G., Liu, Y., Wang, Y., Zhou, J.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free:
0.231 (Depositor), 0.232 (DCC)
R-Value Work:
0.186 (Depositor), 0.192 (DCC)
R-Value Observed:
0.189 (Depositor)

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

Validation slider image for 7C3V

Ligand Structure Quality Assessment

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

Literature

Structure of a thermostable Alcohol dehydrogenase from Kluyveromyces polyspora(KpADH)

Dai, W., Ni, Y., Xu, G., Liu, Y., Wang, Y., Zhou, J.

To be published.

Macromolecule Content

Total Structure Weight: 39.65 kDa
Atom Count: 2,969
Modeled Residue Count: 342
Deposited Residue Count: 342
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Alcohol dehydrogenase	A	342	Kluyveromyces sp. CCTCC M2011385	Mutation(s): 0
UniProt
Find proteins for A0A1B0UHJ2 (Kluyveromyces sp. CCTCC M2011385) Explore A0A1B0UHJ2 Go to UniProtKB: A0A1B0UHJ2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A1B0UHJ2
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NAP Query on NAP Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₂₈ N₇ O₁₇ P₃ XJLXINKUBYWONI-NNYOXOHSSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.20 Å
R-Value Free: 0.231 (Depositor), 0.232 (DCC)
R-Value Work: 0.186 (Depositor), 0.192 (DCC)
R-Value Observed: 0.189 (Depositor)

Space Group: P 6₂

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 102.867	α = 90
b = 102.867	β = 90
c = 65.908	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: 2021-05-19

Deposition Author(s):

Funding Organization	Location	Grant Number
National Natural Science Foundation of China (NSFC)	China	--

Revision History (Full details and data files)

Version 1.0: 2021-05-19
Type: Initial release
Version 1.1: 2023-11-29
Changes: Data collection, Database references, Refinement description

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.