6ROG | pdb_00006rog

Crystal Structure of the KELCH domain of human KEAP1

PDB DOI: https://doi.org/10.2210/pdb6ROG/pdb

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

Deposited: 2019-05-13 Released: 2019-06-19
Deposition Author(s): Sethi, R., Krojer, T., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Bullock, A.N., von Delft, F., Structural Genomics Consortium (SGC)
Funding Organization(s): Wellcome Trust

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free:
0.206 (Depositor), 0.210 (DCC)
R-Value Work:
0.176 (Depositor), 0.184 (DCC)
R-Value Observed:
0.178 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.3 of the entry. See complete history.

Literature

Crystal Structure of the KELCH domain of human KEAP1

Sethi, R., Krojer, T., Bountra, C., Arrowsmith, C.H., Edwards, A.M., Bullock, A.N., von Delft, F.

To be published.

Macromolecule Content

Total Structure Weight: 64.25 kDa
Atom Count: 4,906
Modeled Residue Count: 572
Deposited Residue Count: 582
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Kelch-like ECH-associated protein 1	A [auth X], B [auth A]	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% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q14145
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
FMT Query on FMT Download:Ideal Coordinates CCD File SDF format, chain C [auth X] SDF format, chain D [auth X] SDF format, chain E [auth X] SDF format, chain F [auth X] SDF format, chain J [auth A] SDF format, chain K [auth A] SDF format, chain L [auth A] SDF format, chain M [auth A] SDF format, chain G [auth X] MOL2 format, chain C [auth X] MOL2 format, chain D [auth X] MOL2 format, chain E [auth X] MOL2 format, chain F [auth X] MOL2 format, chain J [auth A] MOL2 format, chain K [auth A] MOL2 format, chain L [auth A] MOL2 format, chain M [auth A] MOL2 format, chain G [auth X] mmCIF format, chain C [auth X] mmCIF format, chain D [auth X] mmCIF format, chain E [auth X] mmCIF format, chain F [auth X] mmCIF format, chain J [auth A] mmCIF format, chain K [auth A] mmCIF format, chain L [auth A] mmCIF format, chain M [auth A] mmCIF format, chain G [auth X]	C [auth X] D [auth X] E [auth X] F [auth X] G [auth X] C [auth X], D [auth X], E [auth X], F [auth X], G [auth X], J [auth A], K [auth A], L [auth A], M [auth A]	FORMIC ACID C H₂ O₂ BDAGIHXWWSANSR-UHFFFAOYSA-N		Interactions Focus chain C [auth X] Focus chain D [auth X] Focus chain E [auth X] Focus chain F [auth X] Focus chain G [auth X] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A] Interactions & Density Focus chain C [auth X] Focus chain D [auth X] Focus chain E [auth X] Focus chain F [auth X] Focus chain G [auth X] Focus chain J [auth A] Focus chain K [auth A] Focus chain L [auth A] Focus chain M [auth A]
NA Query on NA Download:Ideal Coordinates CCD File SDF format, chain H [auth X] SDF format, chain I [auth X] SDF format, chain N [auth A] SDF format, chain O [auth A] MOL2 format, chain H [auth X] MOL2 format, chain I [auth X] MOL2 format, chain N [auth A] MOL2 format, chain O [auth A] mmCIF format, chain H [auth X] mmCIF format, chain I [auth X] mmCIF format, chain N [auth A] mmCIF format, chain O [auth A]	H [auth X], I [auth X], N [auth A], O [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain H [auth X] Focus chain I [auth X] Focus chain N [auth A] Focus chain O [auth A] Interactions & Density Focus chain H [auth X] Focus chain I [auth X] Focus chain N [auth A] Focus chain O [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.16 Å
R-Value Free: 0.206 (Depositor), 0.210 (DCC)
R-Value Work: 0.176 (Depositor), 0.184 (DCC)
R-Value Observed: 0.178 (Depositor)

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.3	α = 90
b = 76.44	β = 90
c = 213.63	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

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Entry History

& Funding Information

Deposition Data

Released Date: 2019-06-19

Deposition Author(s):

Structural Genomics Consortium (SGC)

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	--

Revision History (Full details and data files)

Version 1.0: 2019-06-19
Type: Initial release
Version 1.1: 2019-08-21
Changes: Data collection
Version 1.2: 2024-01-24
Changes: Data collection, Database references, Derived calculations, Refinement description
Version 1.3: 2024-11-13
Changes: Structure summary