1KSF | pdb_00001ksf

Crystal Structure of ClpA, an HSP100 chaperone and regulator of ClpAP protease: Structural basis of differences in Function of the Two AAA+ ATPase domains

PDB DOI: https://doi.org/10.2210/pdb1KSF/pdb

Classification: HYDROLASE, LIGAND BINDING PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2002-01-12 Released: 2002-09-27
Deposition Author(s): Guo, F., Maurizi, M.R., Esser, L., Xia, D.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.60 Å
R-Value Free:
0.304 (Depositor)
R-Value Work:
0.216 (Depositor)
R-Value Observed:
0.221 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of ClpA, an HSP100 chaperone and regulator of ClpAP protease

Guo, F., Maurizi, M.R., Esser, L., Xia, D.

(2002) J Biological Chem 277: 46743-46752

PubMed: 12205096 Search on PubMed
DOI: https://doi.org/10.1074/jbc.M207796200
Primary Citation Related Structures:
1K6K, 1KSF

PubMed Abstract:
Escherichia coli ClpA, an Hsp100/Clp chaperone and an integral component of the ATP-dependent ClpAP protease, participates in regulatory protein degradation and the dissolution and degradation of protein aggregates. The crystal structure of the ClpA subunit reveals an N-terminal domain with pseudo-twofold symmetry and two AAA(+) modules (D1 and D2) each consisting of a large and a small sub-domain with ADP bound in the sub-domain junction. The N-terminal domain interacts with the D1 domain in a manner similar to adaptor-binding domains of other AAA(+) proteins. D1 and D2 are connected head-to-tail consistent with a cooperative and vectorial translocation of protein substrates. In a planar hexamer model of ClpA, built by assembling ClpA D1 and D2 into homohexameric rings of known structures of AAA(+) modules, the differences in D1-D1 and D2-D2 interfaces correlate with their respective contributions to hexamer stability and ATPase activity.

Organizational Affiliation

Laboratory of Cell Biology, Center for Cancer Research, NCI, National Institutes of Health, Bethesda, Maryland 20892, USA.

Macromolecule Content

Total Structure Weight: 85.96 kDa
Atom Count: 5,929
Modeled Residue Count: 714
Deposited Residue Count: 758
Unique protein chains: 1

Macromolecules

Find similar proteins by:

| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
ATP-DEPENDENT CLP PROTEASE ATP-BINDING SUBUNIT CLPA	A [auth X]	758	Escherichia coli	Mutation(s): 1
UniProt
Find proteins for P0ABH9 (Escherichia coli (strain K12)) Explore P0ABH9 Go to UniProtKB: P0ABH9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P0ABH9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP Query on ADP Download:Ideal Coordinates CCD File SDF format, chain G [auth X] SDF format, chain H [auth X] MOL2 format, chain G [auth X] MOL2 format, chain H [auth X] mmCIF format, chain G [auth X] mmCIF format, chain H [auth X]	G [auth X], H [auth X]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain G [auth X] Focus chain H [auth X]
PGE Query on PGE Download:Ideal Coordinates CCD File SDF format, chain E [auth X] SDF format, chain F [auth X] MOL2 format, chain E [auth X] MOL2 format, chain F [auth X] mmCIF format, chain E [auth X] mmCIF format, chain F [auth X]	E [auth X], F [auth X]	TRIETHYLENE GLYCOL C₆ H₁₄ O₄ ZIBGPFATKBEMQZ-UHFFFAOYSA-N		Interactions Focus chain E [auth X] Focus chain F [auth X]
MET Query on MET Download:Ideal Coordinates CCD File SDF format, chain D [auth X] MOL2 format, chain D [auth X] mmCIF format, chain D [auth X]	D [auth X]	METHIONINE C₅ H₁₁ N O₂ S FFEARJCKVFRZRR-BYPYZUCNSA-N		Interactions Focus chain D [auth X]
IPA Query on IPA Download:Ideal Coordinates CCD File SDF format, chain I [auth X] SDF format, chain J [auth X] SDF format, chain K [auth X] SDF format, chain L [auth X] SDF format, chain M [auth X] MOL2 format, chain I [auth X] MOL2 format, chain J [auth X] MOL2 format, chain K [auth X] MOL2 format, chain L [auth X] MOL2 format, chain M [auth X] mmCIF format, chain I [auth X] mmCIF format, chain J [auth X] mmCIF format, chain K [auth X] mmCIF format, chain L [auth X] mmCIF format, chain M [auth X]	I [auth X], J [auth X], K [auth X], L [auth X], M [auth X]	ISOPROPYL ALCOHOL C₃ H₈ O KFZMGEQAYNKOFK-UHFFFAOYSA-N		Interactions Focus chain I [auth X] Focus chain J [auth X] Focus chain K [auth X] Focus chain L [auth X] Focus chain M [auth X]
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain B [auth X] SDF format, chain C [auth X] MOL2 format, chain B [auth X] MOL2 format, chain C [auth X] mmCIF format, chain B [auth X] mmCIF format, chain C [auth X]	B [auth X], C [auth X]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain B [auth X] Focus chain C [auth X]