5XO8

Crystal structure of a novel ZEN lactonase mutant with ligand Z

PDB DOI: https://doi.org/10.2210/pdb5XO8/pdb

Classification: HYDROLASE
Organism(s): Rhinocladiella mackenziei CBS 650.93
Expression System: Escherichia coli BL21(DE3)
Mutation(s): Yes

Deposited: 2017-05-27 Released: 2018-05-02
Deposition Author(s): Zheng, Y.Y., Liu, W.T., Liu, W.D., Chen, C.C., Guo, R.T.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.88 Å
R-Value Free: 0.181
R-Value Work: 0.145
R-Value Observed: 0.146

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Crystal Structure of a Mycoestrogen-Detoxifying Lactonase from Rhinocladiella mackenziei: Molecular Insight into ZHD Substrate Selectivity

Zheng, Y.Y., Liu, W.T., Chen, C.C., Hu, X.Y., Liu, W.D., Ko, T.P., Tang, X.K., Wei, H.L., Huang, J.W., Guo, R.T.

(2018) ACS Catal 8: 4294-4298

DOI: https://doi.org/10.1021/acscatal.8b00464

Macromolecule Content

Total Structure Weight: 238.14 kDa
Atom Count: 19,224
Modelled Residue Count: 2,104
Deposited Residue Count: 2,128
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Lactonase for protein	A, B, C, D, E A, B, C, D, E, F, G, H	266	Rhinocladiella mackenziei CBS 650.93	Mutation(s): 1 Gene Names: Z518_04590
UniProt
Find proteins for A0A0D2ILK1 (Rhinocladiella mackenziei CBS 650.93) Explore A0A0D2ILK1 Go to UniProtKB: A0A0D2ILK1
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A0D2ILK1
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ZER Query on ZER Download Ideal Coordinates CCD File SDF format, chain K [auth C] SDF format, chain L [auth D] SDF format, chain M [auth E] SDF format, chain N [auth F] SDF format, chain I [auth A] SDF format, chain J [auth B] SDF format, chain O [auth G] SDF format, chain P [auth H] MOL2 format, chain K [auth C] MOL2 format, chain L [auth D] MOL2 format, chain M [auth E] MOL2 format, chain N [auth F] MOL2 format, chain I [auth A] MOL2 format, chain J [auth B] MOL2 format, chain O [auth G] MOL2 format, chain P [auth H] mmCIF format, chain K [auth C] mmCIF format, chain L [auth D] mmCIF format, chain M [auth E] mmCIF format, chain N [auth F] mmCIF format, chain I [auth A] mmCIF format, chain J [auth B] mmCIF format, chain O [auth G] mmCIF format, chain P [auth H]	I [auth A] J [auth B] K [auth C] L [auth D] M [auth E] I [auth A], J [auth B], K [auth C], L [auth D], M [auth E], N [auth F], O [auth G], P [auth H]	(3S,11E)-14,16-dihydroxy-3-methyl-3,4,5,6,9,10-hexahydro-1H-2-benzoxacyclotetradecine-1,7(8H)-dione C₁₈ H₂₂ O₅ MBMQEIFVQACCCH-QBODLPLBSA-N		Interactions Focus chain I [auth A] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth F] Focus chain O [auth G] Focus chain P [auth H] Interactions & Density Focus chain I [auth A] Focus chain J [auth B] Focus chain K [auth C] Focus chain L [auth D] Focus chain M [auth E] Focus chain N [auth F] Focus chain O [auth G] Focus chain P [auth H]