7WDM | pdb_00007wdm

Fungal immunomodulatory protein FIP-gmi

• PDB DOI: https://doi.org/10.2210/pdb7WDM/pdb

• Classification: IMMUNE SYSTEM
• Organism(s): Ganoderma microsporum
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2021-12-22 Released: 2022-12-28 
• Deposition Author(s): Liu, Y., Bastiaan-Net, S., Zhang, Y., Hoppenbrouwers, T., Xie, Y., Wang, Y., Wei, X., Du, G., Zhang, H., Imam, K.M.S.U., Wichers, H.J., Li, Z.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.12 Å
• R-Value Free: 
  0.217 (Depositor), 0.220 (DCC) 
• R-Value Work: 
  0.205 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.206 (Depositor) 

Starting Model: experimental

Literature

Linking the thermostability of FIP-nha (Nectria haematococca) to its structural properties

Liu, Y.

To be published.

Biological Assembly 1  

Global Symmetry: Dihedral - D2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: light scattering

Macromolecule Content 

• Total Structure Weight: 14.77 kDa 
• Atom Count: 1,013 
• Modeled Residue Count: 113 
• Deposited Residue Count: 133 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Immunomodulatory protein	A	133	Ganoderma microsporum	Mutation(s): 0
UniProt
Find proteins for E7FH75 (Ganoderma microsporum) Explore E7FH75  Go to UniProtKB:  E7FH75

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.12 Å
• R-Value Free:  0.217 (Depositor), 0.220 (DCC) 
• R-Value Work:  0.205 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.206 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 96.585	α = 90
b = 96.585	β = 90
c = 80.303	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-12-28 
Deposition Author(s): Liu, Y., Bastiaan-Net, S., Zhang, Y., Hoppenbrouwers, T., Xie, Y., Wang, Y., Wei, X., Du, G., Zhang, H., Imam, K.M.S.U., Wichers, H.J., Li, Z.

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Funding Organization	Location	Grant Number
Other government	China	2017YFD0400204
Other government	Netherlands	KB-37-001-007

Revision History  

• Version 1.0: 2022-12-28
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description