5XF2

Deposited: 2017-04-07 Released: 2017-07-19
Deposition Author(s): Park, J., Kim, H., Kim, S., Lee, D., Shin, D.H.
Funding Organization(s): National Research Foundation of Korea (NRF) funded by the Ministry of Education

Experimental Data Snapshot

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

(2017) Acta Crystallogr F Struct Biol Commun 73: 90-94

PubMed Abstract:
The Gram-negative bacterium Burkholderia pseudomallei is the causative agent of melioidosis. D-glycero-β-D-manno-Heptose-1-phosphate adenylyltransferase (HldC) is the fourth enzyme of the ADP-L-glycero-β-D-manno-heptose biosynthesis pathway, which produces an essential carbohydrate comprising the inner core of lipopolysaccharide. Therefore, HldC is a potential target of antibiotics against melioidosis. In this study, HldC from B. pseudomallei has been cloned, expressed, purified and crystallized. Synchrotron X-ray data from a selenomethionine-substituted HldC crystal were also collected to 2.8 Å resolution. The crystal belonged to the primitive triclinic space group P1, with unit-cell parameters a = 74.0, b = 74.0, c = 74.9 Å, α = 108.4, β = 108.4, γ = 108.0°. Eight protomers are present in the unit cell and three out of five selenomethionines were found in each protomer using the PHENIX software suite. A full structural determination is in progress to elucidate the structure-function relationship of the protein.

Organizational Affiliation

College of Pharmacy, Ewha W. University, 52 Ewhayeodae-gil, Seoul 03760, Republic of Korea.

Macromolecule Content

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Putative cytidylyltransferase	A, B, C, D, E A, B, C, D, E, F, G, H	173	Burkholderia pseudomallei K96243	Mutation(s): 0 Gene Names: BPSL0395
UniProt
Find proteins for Q63XZ4 (Burkholderia pseudomallei (strain K96243)) Explore Q63XZ4 Go to UniProtKB: Q63XZ4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q63XZ4
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
EPE Query on EPE Download Ideal Coordinates CCD File SDF format, chain I [auth B] SDF format, chain J [auth D] SDF format, chain K [auth F] SDF format, chain L [auth H] MOL2 format, chain I [auth B] MOL2 format, chain J [auth D] MOL2 format, chain K [auth F] MOL2 format, chain L [auth H]	I [auth B], J [auth D], K [auth F], L [auth H]	4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID C₈ H₁₈ N₂ O₄ S JKMHFZQWWAIEOD-UHFFFAOYSA-N		Interactions Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth F] Focus chain L [auth H] Interactions & Density Focus chain I [auth B] Focus chain J [auth D] Focus chain K [auth F] Focus chain L [auth H]