1F4V

CRYSTAL STRUCTURE OF ACTIVATED CHEY BOUND TO THE N-TERMINUS OF FLIM

PDB DOI: https://doi.org/10.2210/pdb1F4V/pdb

Classification: SIGNALING PROTEIN
Organism(s): Escherichia coli
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2000-06-10 Released: 2001-01-17
Deposition Author(s): Lee, S.Y., Cho, H.S., Pelton, J.G., Yan, D., Henderson, R.K., King, D., Huang, L.S., Kustu, S., Berry, E.A., Wemmer, D.E.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.22 Å
R-Value Free:
0.258 (Depositor)
R-Value Work:
0.217 (Depositor), 0.210 (DCC)
R-Value Observed:
0.219 (Depositor)

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structure of an activated response regulator bound to its target.

Lee, S.Y., Cho, H.S., Pelton, J.G., Yan, D., Henderson, R.K., King, D.S., Huang, L., Kustu, S., Berry, E.A., Wemmer, D.E.

(2001) Nat Struct Biol 8: 52-56

PubMed: 11135671 Search on PubMed
DOI: https://doi.org/10.1038/83053
Primary Citation of Related Structures:
1F4V

PubMed Abstract:
The chemotactic regulator CheY controls the direction of flagellar rotation in Escherichia coli. We have determined the crystal structure of BeF3--activated CheY from E. coli in complex with an N-terminal peptide derived from its target, FliM. The structure reveals that the first seven residues of the peptide pack against the beta4-H4 loop and helix H4 of CheY in an extended conformation, whereas residues 8-15 form two turns of helix and pack against the H4-beta5-H5 face. The peptide binds the only region of CheY that undergoes noticeable conformational change upon activation and would most likely be sandwiched between activated CheY and the remainder of FliM to reverse the direction of flagellar rotation.

Organizational Affiliation

Graduate Group in Biophysics, University of California, Berkeley, California 94720, USA.

Macromolecule Content

Total Structure Weight: 47.47 kDa
Atom Count: 3,553
Modelled Residue Count: 426
Deposited Residue Count: 432
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
CHEMOTAXIS CHEY PROTEIN	A, B, C	128	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P0AE67 (Escherichia coli (strain K12)) Explore P0AE67 Go to UniProtKB: P0AE67
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0AE67
Sequence Annotations Expand
Reference Sequence LOADING

Find similar proteins by: Sequence | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
FLAGELLAR MOTOR SWITCH PROTEIN	D, E, F	16	Escherichia coli	Mutation(s): 0
UniProt
Find proteins for P06974 (Escherichia coli (strain K12)) Explore P06974 Go to UniProtKB: P06974
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P06974
Sequence Annotations Expand
Reference Sequence LOADING

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
GOL Query on GOL Download Ideal Coordinates CCD File SDF format, chain I [auth A] SDF format, chain L [auth B] MOL2 format, chain I [auth A] MOL2 format, chain L [auth B] mmCIF format, chain I [auth A] mmCIF format, chain L [auth B]	I [auth A], L [auth B]	GLYCEROL C₃ H₈ O₃ PEDCQBHIVMGVHV-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Focus chain L [auth B] Interactions & Density Focus chain I [auth A] Focus chain L [auth B]
BEF Query on BEF Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain K [auth B] SDF format, chain N [auth C] MOL2 format, chain H [auth A] MOL2 format, chain K [auth B] MOL2 format, chain N [auth C] mmCIF format, chain H [auth A] mmCIF format, chain K [auth B] mmCIF format, chain N [auth C]	H [auth A], K [auth B], N [auth C]	BERYLLIUM TRIFLUORIDE ION Be F₃ OGIAHMCCNXDTIE-UHFFFAOYSA-K		Interactions Focus chain H [auth A] Focus chain K [auth B] Focus chain N [auth C] Interactions & Density Focus chain H [auth A] Focus chain K [auth B] Focus chain N [auth C]
MG Query on MG Download Ideal Coordinates CCD File SDF format, chain G [auth A] SDF format, chain J [auth B] SDF format, chain M [auth C] MOL2 format, chain G [auth A] MOL2 format, chain J [auth B] MOL2 format, chain M [auth C] mmCIF format, chain G [auth A] mmCIF format, chain J [auth B] mmCIF format, chain M [auth C]	G [auth A], J [auth B], M [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain G [auth A] Focus chain J [auth B] Focus chain M [auth C] Interactions & Density Focus chain G [auth A] Focus chain J [auth B] Focus chain M [auth C]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.22 Å
R-Value Free: 0.258 (Depositor)
R-Value Work: 0.217 (Depositor), 0.210 (DCC)
R-Value Observed: 0.219 (Depositor)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.232	α = 90
b = 54.233	β = 90
c = 347.433	γ = 120

Software Package:

Software Name	Purpose
MLPHARE	phasing
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2001-01-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2001-01-17
Type: Initial release
Version 1.1: 2008-04-27
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Non-polymer description, Version format compliance
Version 1.3: 2018-04-18
Changes: Data collection
Version 1.4: 2024-02-07
Changes: Data collection, Database references, Derived calculations