2ICP | pdb_00002icp

Crystal structure of the bacterial antitoxin HigA from Escherichia coli at pH 4.0. Northeast Structural Genomics Consortium TARGET ER390.

PDB DOI: https://doi.org/10.2210/pdb2ICP/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Escherichia coli CFT073
Expression System: Escherichia coli
Mutation(s): Yes

Deposited: 2006-09-13 Released: 2006-09-26
Deposition Author(s): Arbing, M.A., Abashidze, M., Hurley, J.M., Zhao, L., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Inouye, M., Woychik, N.A., Montelione, G.T., Hunt, J.F., Northeast Structural Genomics Consortium (NESG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free:
0.225 (Depositor), 0.240 (DCC)
R-Value Work:
0.184 (Depositor), 0.201 (DCC)

wwPDB Validation 3D Report Full Report

This is version 1.5 of the entry. See complete history.

Literature

Crystal structure of the bacterial antitoxin HigA from Escherichia coli.

Arbing, M.A., Abashidze, M., Hurley, J.M., Zhao, L., Janjua, H., Cunningham, K., Ma, L.C., Xiao, R., Liu, J., Baran, M.C., Acton, T.B., Rost, B., Inouye, M., Woychik, N.A., Montelione, G.T., Hunt, J.F.

To be published.

Macromolecule Content

Total Structure Weight: 10.67 kDa
Atom Count: 747
Modeled Residue Count: 87
Deposited Residue Count: 94
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
antitoxin higa	A	94	Escherichia coli CFT073	Mutation(s): 5 Gene Names: higa
UniProt
Find proteins for P67700 (Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC)) Explore P67700 Go to UniProtKB: P67700
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	P67700
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
MG Query on MG Download:Ideal Coordinates CCD File SDF format, chain B [auth A] MOL2 format, chain B [auth A] mmCIF format, chain B [auth A]	B [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE Query on MSE	A	L-PEPTIDE LINKING	C₅ H₁₁ N O₂ Se		MET

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.225 (Depositor), 0.240 (DCC)
R-Value Work: 0.184 (Depositor), 0.201 (DCC)

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.127	α = 90
b = 23.526	β = 94.05
c = 41.593	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
SCALEPACK	data scaling
COMO	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction

Structure Validation

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View more in-depth experimental data

Entry History

Deposition Data

Released Date: 2006-09-26

Deposition Author(s):

Northeast Structural Genomics Consortium (NESG)

Revision History (Full details and data files)

Version 1.0: 2006-09-26
Type: Initial release
Version 1.1: 2008-05-01
Changes: Version format compliance
Version 1.2: 2011-07-13
Changes: Derived calculations, Source and taxonomy, Version format compliance
Version 1.3: 2017-10-18
Changes: Refinement description
Version 1.4: 2019-07-24
Changes: Data collection, Derived calculations, Refinement description
Version 1.5: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary