3HOF | pdb_00003hof

Structure of macrophage migration inhibitory factor (MIF) with caffeic acid at 1.9A resolution

• PDB DOI: https://doi.org/10.2210/pdb3HOF/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2009-06-02 Released: 2009-06-16 
• Deposition Author(s): Crawley, L., Barker, J., Cheng, R.K.Y., Wood, M., Felicetti, B.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.200 (Depositor), 0.208 (DCC) 
• R-Value Work: 
  0.173 (Depositor), 0.188 (DCC) 
• R-Value Observed: 
  0.174 (Depositor) 

Starting Model: experimental

Literature

Structure of macrophage migration inhibitory factor (MIF) with caffeic acid at 1.9A resolution

Crawley, L., Barker, J., Cheng, R.K.Y., Wood, M., Felicetti, B.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content 

• Total Structure Weight: 40.85 kDa 
• Atom Count: 3,044 
• Modeled Residue Count: 349 
• Deposited Residue Count: 369 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrophage migration inhibitory factor	A, B, C	123	Homo sapiens	Mutation(s): 0  Gene Names: MIF EC: 5.3.2.1 (PDB Primary Data), 5.3.3.12 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P14174 (Homo sapiens) Explore P14174  Go to UniProtKB:  P14174
PHAROS:  P14174 GTEx:  ENSG00000240972

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DHC	D [auth C]	CAFFEIC ACID C9 H8 O4 QAIPRVGONGVQAS-DUXPYHPUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.200 (Depositor), 0.208 (DCC) 
• R-Value Work:  0.173 (Depositor), 0.188 (DCC) 
• R-Value Observed: 0.174 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.669	α = 90
b = 67.988	β = 90
c = 89.135	γ = 90

Software Package:

Software Name	Purpose
DNA	data collection
PHASER	phasing
REFMAC	refinement
CrystalClear	data reduction
CrystalClear	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2009-06-16 
Deposition Author(s): Crawley, L., Barker, J., Cheng, R.K.Y., Wood, M., Felicetti, B.

Revision History  

• Version 1.0: 2009-06-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Version format compliance
• Version 1.2: 2023-11-01
  Changes: Data collection, Database references, Derived calculations, Refinement description