5J4R | pdb_00005j4r

WELO5 SMALL MOLECULE HALOGENASE WITH NI(II) AND 2-OXOGLUTARATE

PDB DOI: https://doi.org/10.2210/pdb5J4R/pdb

Classification: HYDROLASE
Organism(s): Hapalosiphon welwitschii UTEX B 1830
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2016-04-01 Released: 2017-04-12
Deposition Author(s): McDonough, M.A., Gallimore, E., Clifton, I.J., Schofield, C.J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free:
0.160 (Depositor), 0.168 (DCC)
R-Value Work:
0.138 (Depositor), 0.150 (DCC)
R-Value Observed:
0.139 (Depositor)

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This is version 1.1 of the entry. See complete history.

Literature

WELO5 SMALL MOLECULE HALOGENASE WITH NI(II) AND 2-OXOGLUTARATE

Gallimore, E., McDonough, M.A., Clifton, I.J., Schofield, C.J.

To be published.

Macromolecule Content

Total Structure Weight: 32.76 kDa
Atom Count: 2,492
Modeled Residue Count: 280
Deposited Residue Count: 291
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
WelO5	A	291	Hapalosiphon welwitschii UTEX B 1830	Mutation(s): 0
UniProt
Find proteins for A0A067YX61 (Hapalosiphon welwitschii UTEX B 1830) Explore A0A067YX61 Go to UniProtKB: A0A067YX61
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A067YX61
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
AKG Query on AKG 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]	2-OXOGLUTARIC ACID C₅ H₆ O₅ KPGXRSRHYNQIFN-UHFFFAOYSA-N		Interactions Focus chain B [auth A] Interactions & Density Focus chain B [auth A]
NI Query on NI Download:Ideal Coordinates CCD File SDF format, chain C [auth A] MOL2 format, chain C [auth A] mmCIF format, chain C [auth A]	C [auth A]	NICKEL (II) ION Ni VEQPNABPJHWNSG-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Interactions & Density Focus chain C [auth A]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.65 Å
R-Value Free: 0.160 (Depositor), 0.168 (DCC)
R-Value Work: 0.138 (Depositor), 0.150 (DCC)
R-Value Observed: 0.139 (Depositor)

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 52.03	α = 90
b = 102.77	β = 90
c = 123.98	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XSCALE	data scaling
SHELX	phasing
PDB_EXTRACT	data extraction
XDS	data reduction

Structure Validation

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Entry History

Deposition Data

Released Date: 2017-04-12

Deposition Author(s):

McDonough, M.A.

Schofield, C.J.

Revision History (Full details and data files)

Version 1.0: 2017-04-12
Type: Initial release
Version 1.1: 2024-05-08
Changes: Data collection, Database references, Derived calculations

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