2BP1

Structure of the aflatoxin aldehyde reductase in complex with NADPH

PDB DOI: https://doi.org/10.2210/pdb2BP1/pdb

Classification: OXIDOREDUCTASE
Organism(s): Homo sapiens
Expression System: Escherichia coli BL21
Mutation(s): No

Deposited: 2005-04-17 Released: 2005-05-11
Deposition Author(s): Debreczeni, J.E., Lukacik, P., Kavanagh, K., Dubinina, E., Bray, J., Colebrook, S., Haroniti, A., Edwards, A., Arrowsmith, C., Sundstrom, M., von Delft, F., Gileadi, O., Oppermann, U.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.205 (Depositor), 0.210 (DCC)
R-Value Work:
0.155 (Depositor), 0.170 (DCC)
R-Value Observed:
0.157 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.4 of the entry. See complete history.

Literature

Structure of the Aflatoxin Aldehyde Reductase in Complex with Nadph

Debreczeni, J.E., Lukacik, P., Kavanagh, K., Dubinina, E., Bray, J., Colebrook, S., Haroniti, A., Edwards, A., Arrowsmith, C., Sundstrom, M., von Delft, F., Gileadi, O., Oppermann, U.

To be published.

Macromolecule Content

Total Structure Weight: 162.64 kDa
Atom Count: 10,735
Modelled Residue Count: 1,286
Deposited Residue Count: 1,440
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
AFLATOXIN B1 ALDEHYDE REDUCTASE MEMBER 2	A, B, C, D	360	Homo sapiens	Mutation(s): 0
UniProt & NIH Common Fund Data Resources
Find proteins for O43488 (Homo sapiens) Explore O43488 Go to UniProtKB: O43488
PHAROS: O43488 GTEx: ENSG00000053371
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	O43488
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
NDP Query on NDP Download Ideal Coordinates CCD File SDF format, chain E [auth A] SDF format, chain G [auth B] SDF format, chain I [auth C] SDF format, chain K [auth D] MOL2 format, chain E [auth A] MOL2 format, chain G [auth B] MOL2 format, chain I [auth C] MOL2 format, chain K [auth D] mmCIF format, chain E [auth A] mmCIF format, chain G [auth B] mmCIF format, chain I [auth C] mmCIF format, chain K [auth D]	E [auth A], G [auth B], I [auth C], K [auth D]	NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE C₂₁ H₃₀ N₇ O₁₇ P₃ ACFIXJIJDZMPPO-NNYOXOHSSA-N		Interactions Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain K [auth D] Interactions & Density Focus chain E [auth A] Focus chain G [auth B] Focus chain I [auth C] Focus chain K [auth D]
FLC Query on FLC Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain H [auth B] SDF format, chain J [auth C] SDF format, chain L [auth D] MOL2 format, chain F [auth A] MOL2 format, chain H [auth B] MOL2 format, chain J [auth C] MOL2 format, chain L [auth D] mmCIF format, chain F [auth A] mmCIF format, chain H [auth B] mmCIF format, chain J [auth C] mmCIF format, chain L [auth D]	F [auth A], H [auth B], J [auth C], L [auth D]	CITRATE ANION C₆ H₅ O₇ KRKNYBCHXYNGOX-UHFFFAOYSA-K		Interactions Focus chain F [auth A] Focus chain H [auth B] Focus chain J [auth C] Focus chain L [auth D] Interactions & Density Focus chain F [auth A] Focus chain H [auth B] Focus chain J [auth C] Focus chain L [auth D]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.205 (Depositor), 0.210 (DCC)
R-Value Work: 0.155 (Depositor), 0.170 (DCC)
R-Value Observed: 0.157 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 58.989	α = 88.72
b = 78.786	β = 71.14
c = 86.019	γ = 75.22

Software Package:

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

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2005-05-11

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2005-05-11
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2018-01-24
Changes: Database references
Version 1.3: 2019-05-08
Changes: Data collection, Experimental preparation
Version 1.4: 2023-12-13
Changes: Data collection, Database references, Other, Refinement description