4IFN | pdb_00004ifn

Crystal Structures of apo Keap1, Keap1-peptide, and Keap1-compound complexes

PDB DOI: https://doi.org/10.2210/pdb4IFN/pdb

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

Deposited: 2012-12-14 Released: 2013-12-18
Deposition Author(s): Pan, H., Lin, M., Yang, Y., Callaway, K., Baker, J., Diep, L., Yan, J., Tanaka, K., Zhu, Y.L., Konradi, A.W., Jobling, M., Tam, D., Ren, Z., Cheung, H., Bova, M., Riley, B.E., Yao, N., Artis, D.R.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.352 (Depositor), 0.363 (DCC)
R-Value Work:
0.274 (Depositor), 0.270 (DCC)
R-Value Observed:
0.278 (Depositor)

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal Structures of apo Keap1, Keap1-peptide, and Keap1-compound complexes

Pan, H., Lin, M., Yang, Y., Callaway, K., Baker, J., Diep, L., Yan, J., Tanaka, K., Zhu, Y.L., Konradi, A.W., Jobling, M., Tam, D., Ren, Z., Cheung, H., Bova, M., Riley, B.E., Yao, N., Artis, D.R.

(null) Acta Crystallogr D Biol Crystallogr

Macromolecule Content

Total Structure Weight: 32.28 kDa
Atom Count: 2,345
Modeled Residue Count: 285
Deposited Residue Count: 291
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
kelch-like ECH-associated protein 1	A [auth X]	291	Homo sapiens	Mutation(s): 0 Gene Names: KEAP1, INRF2, KIAA0132, KLHL19
UniProt & NIH Common Fund Data Resources
Find proteins for Q14145 (Homo sapiens) Explore Q14145 Go to UniProtKB: Q14145
PHAROS: Q14145 GTEx: ENSG00000079999
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q14145
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
12O Query on 12O Download Ideal Coordinates CCD File SDF format, chain B [auth X] MOL2 format, chain B [auth X] mmCIF format, chain B [auth X]	B [auth X]	(1R,2R)-2-{[(1S)-1-[(1,3-dioxo-1,3-dihydro-2H-isoindol-2-yl)methyl]-3,4-dihydroisoquinolin-2(1H)-yl]carbonyl}cyclohexanecarboxylic acid C₂₆ H₂₆ N₂ O₅ LNENLABLFGGAFF-YPAWHYETSA-N		Interactions Focus chain B [auth X] Interactions & Density Focus chain B [auth X]

Binding Affinity Annotations
ID	Source	Binding Affinity
12O	BindingDB: 4IFN	Kd: 7.00e+5 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.352 (Depositor), 0.363 (DCC)
R-Value Work: 0.274 (Depositor), 0.270 (DCC)
R-Value Observed: 0.278 (Depositor)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 124.878	α = 90
b = 75.258	β = 106.34
c = 48.754	γ = 90

Software Package:

Software Name	Purpose
CrystalClear	data collection
AMoRE	phasing
REFMAC	refinement
CrystalClear	data reduction
CrystalClear	data scaling

Structure Validation

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Ligand Structure Quality Assessment

Entry History

Deposition Data

Released Date: 2013-12-18

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-12-18
Type: Initial release
Version 1.1: 2024-11-20
Changes: Data collection, Database references, Derived calculations, Structure summary