7MIW | pdb_00007miw

Crystal Structure of Fumarate hydratase class II from Elizabethkingia anophelis NUHP1

PDB DOI: https://doi.org/10.2210/pdb7MIW/pdb

Classification: LYASE
Organism(s): Elizabethkingia anophelis NUHP1
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2021-04-18 Released: 2021-04-28
Deposition Author(s): Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free:
0.147 (Depositor), 0.147 (DCC)
R-Value Work:
0.124 (Depositor), 0.124 (DCC)
R-Value Observed:
0.124 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

Crystal Structure of Fumarate hydratase class II from Elizabethkingia anophelis NUHP1

Abendroth, J., Lorimer, D.D., Horanyi, P.S., Edwards, T.E.

To be published.

Macromolecule Content

Total Structure Weight: 206.92 kDa
Atom Count: 17,297
Modeled Residue Count: 1,854
Deposited Residue Count: 1,888
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Fumarate hydratase class II	A, B, C, D	472	Elizabethkingia anophelis NUHP1	Mutation(s): 0 Gene Names: fumC, BD94_3912 EC: 4.2.1.2
UniProt
Find proteins for A0A077EJP9 (Elizabethkingia anophelis NUHP1) Explore A0A077EJP9 Go to UniProtKB: A0A077EJP9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A077EJP9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EDO Query on EDO Download:Ideal Coordinates CCD File SDF format, chain F [auth B] SDF format, chain E [auth A] MOL2 format, chain F [auth B] MOL2 format, chain E [auth A] mmCIF format, chain F [auth B] mmCIF format, chain E [auth A]	E [auth A], F [auth B]	1,2-ETHANEDIOL C₂ H₆ O₂ LYCAIKOWRPUZTN-UHFFFAOYSA-N		Interactions Focus chain E [auth A] Focus chain F [auth B] Interactions & Density Focus chain E [auth A] Focus chain F [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.25 Å
R-Value Free: 0.147 (Depositor), 0.147 (DCC)
R-Value Work: 0.124 (Depositor), 0.124 (DCC)
R-Value Observed: 0.124 (Depositor)

Diffraction Data:

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 59.76	α = 116.151
b = 92.65	β = 107.668
c = 98.43	γ = 90.032

Software Package:

Software Name	Purpose
XDS	data reduction
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
MoRDa	phasing
ARP/wARP	model building
PHENIX	model building
Coot	model building

Structure Validation

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Entry History

Deposition Data

Released Date: 2021-04-28

Deposition Author(s):

Seattle Structural Genomics Center for Infectious Disease (SSGCID)

Revision History (Full details and data files)

Version 1.0: 2021-04-28
Type: Initial release
Version 1.1: 2023-10-18
Changes: Data collection, Database references, Refinement description

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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.