8X0V | pdb_00008x0v

Crystal structure of cupin-like fold protein StrC in complex with substrate analogue from Stachybotrys sp.g12

PDB DOI: https://doi.org/10.2210/pdb8X0V/pdb

Classification: BIOSYNTHETIC PROTEIN
Organism(s): Stachybotrys sp.
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2023-11-06 Released: 2024-09-11
Deposition Author(s): Wang, H., Wang, W.G.
Funding Organization(s): Other government, National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.226 (Depositor), 0.228 (DCC)
R-Value Work:
0.189 (Depositor), 0.191 (DCC)
R-Value Observed:
0.191 (Depositor)

Starting Model: in silico
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wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

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

Literature

Structural and Computational Insights into the Noncanonical Aromatization in Fungal Polyketide Biosynthesis

Wang, H., Peng, C., Chen, X.X., Wang, H.Y., Yang, R., Xiang, H., Hu, Q.F., Liu, L., Chung, L.W., Matsuda, Y., Wang, W.G.

(2024) ACS Catal 14: 10796-10805

DOI: https://doi.org/10.1021/acscatal.4c01043

Macromolecule Content

Total Structure Weight: 277.91 kDa
Atom Count: 17,977
Modeled Residue Count: 2,213
Deposited Residue Count: 2,484
Unique protein chains: 1

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cupin conserved barrel domain protein	A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	207	Stachybotrys sp.	Mutation(s): 0
UniProt
Find proteins for A0A084QTE3 (Stachybotrys chlorohalonatus (strain IBT 40285)) Explore A0A084QTE3 Go to UniProtKB: A0A084QTE3
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A084QTE3
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
XP3 Query on XP3 Download:Ideal Coordinates CCD File SDF format, chain M [auth A] SDF format, chain N [auth B] SDF format, chain O [auth C] SDF format, chain P [auth D] SDF format, chain Q [auth E] SDF format, chain R [auth F] SDF format, chain S [auth G] SDF format, chain T [auth H] SDF format, chain U [auth I] SDF format, chain V [auth J] SDF format, chain W [auth K] SDF format, chain X [auth L] MOL2 format, chain M [auth A] MOL2 format, chain N [auth B] MOL2 format, chain O [auth C] MOL2 format, chain P [auth D] MOL2 format, chain Q [auth E] MOL2 format, chain R [auth F] MOL2 format, chain S [auth G] MOL2 format, chain T [auth H] MOL2 format, chain U [auth I] MOL2 format, chain V [auth J] MOL2 format, chain W [auth K] MOL2 format, chain X [auth L] mmCIF format, chain M [auth A] mmCIF format, chain N [auth B] mmCIF format, chain O [auth C] mmCIF format, chain P [auth D] mmCIF format, chain Q [auth E] mmCIF format, chain R [auth F] mmCIF format, chain S [auth G] mmCIF format, chain T [auth H] mmCIF format, chain U [auth I] mmCIF format, chain V [auth J] mmCIF format, chain W [auth K] mmCIF format, chain X [auth L]	M [auth A] N [auth B] O [auth C] P [auth D] Q [auth E] M [auth A], N [auth B], O [auth C], P [auth D], Q [auth E], R [auth F], S [auth G], T [auth H], U [auth I], V [auth J], W [auth K], X [auth L]	(5~{R})-2-(hydroxymethyl)-3-[(~{E})-non-3-enyl]-5-oxidanyl-cyclohex-2-en-1-one C₁₆ H₂₆ O₃ UIYPBPASYFNZQB-UHFFFAOYSA-N		Interactions Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L] Interactions & Density Focus chain M [auth A] Focus chain N [auth B] Focus chain O [auth C] Focus chain P [auth D] Focus chain Q [auth E] Focus chain R [auth F] Focus chain S [auth G] Focus chain T [auth H] Focus chain U [auth I] Focus chain V [auth J] Focus chain W [auth K] Focus chain X [auth L]