4IW7 | pdb_00004iw7

Crystal structure of 8-amino-7-oxononanoate synthase (bioF) from Francisella tularensis.

PDB DOI: https://doi.org/10.2210/pdb4IW7/pdb

Classification: TRANSFERASE
Organism(s): Francisella tularensis subsp. tularensis SCHU S4
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2013-01-23 Released: 2013-02-13
Deposition Author(s): Newcomb, W., Niedzialkowska, E., Porebski, P.J., Grimshaw, S., Anderson, W.F., Minor, W., Center for Structural Genomics of Infectious Diseases (CSGID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.25 Å
R-Value Free:
0.238 (Depositor), 0.233 (DCC)
R-Value Work:
0.186 (Depositor), 0.187 (DCC)
R-Value Observed:
0.188 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 4IW7

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

Literature

Crystal structure of 8-amino-7-oxononanoate synthase (bioF) from Francisella tularensis.

Newcomb, W., Niedzialkowska, E., Porebski, P.J., Grimshaw, S., Anderson, W.F., Minor, W.

To be published.

Macromolecule Content

Total Structure Weight: 45.42 kDa
Atom Count: 2,750
Modeled Residue Count: 335
Deposited Residue Count: 399
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
8-amino-7-oxononanoate synthase	A	399	Francisella tularensis subsp. tularensis SCHU S4	Mutation(s): 0 Gene Names: bioF, FTT0936c, FTT_0936c EC: 2.3.1.47
UniProt
Find proteins for Q5NGB3 (Francisella tularensis subsp. tularensis (strain SCHU S4 / Schu 4)) Explore Q5NGB3 Go to UniProtKB: Q5NGB3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5NGB3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Modified Residues 1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
CSD Query on CSD	A	L-PEPTIDE LINKING	C₃ H₇ N O₄ S		CYS

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.25 Å
R-Value Free: 0.238 (Depositor), 0.233 (DCC)
R-Value Work: 0.186 (Depositor), 0.187 (DCC)
R-Value Observed: 0.188 (Depositor)

Diffraction Data:

Space Group: H 3 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 113.486	α = 90
b = 113.486	β = 90
c = 158.128	γ = 120

Software Package:

Software Name	Purpose
HKL-3000	phasing
MOLREP	phasing
REFMAC	refinement
Coot	model building
HKL-3000	data reduction
HKL-3000	data scaling

Structure Validation

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Entry History

Deposition Data

Released Date: 2013-02-13

Deposition Author(s):

Niedzialkowska, E.

Center for Structural Genomics of Infectious Diseases (CSGID)

Revision History (Full details and data files)

Version 1.0: 2013-02-13
Type: Initial release
Version 1.1: 2014-11-12
Changes: Structure summary
Version 1.2: 2017-11-15
Changes: Refinement description
Version 1.3: 2022-04-13
Changes: Database references, Derived calculations, Structure summary
Version 1.4: 2023-09-20
Changes: Data collection, Refinement description
Version 1.5: 2024-11-20
Changes: Structure summary

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.