1VBW | pdb_00001vbw

Crystal Structure of Bitter Gourd Trypsin Inhibitor

• PDB DOI: https://doi.org/10.2210/pdb1VBW/pdb

• Classification: PROTEIN BINDING
• Organism(s): Momordica charantia
• Mutation(s): No 


• Deposited: 2004-03-03 Released: 2005-03-22 
• Deposition Author(s): Suto, K., Furuichi, M., Nishimoto, E., Meno, K., Horii, K., Mizuno, H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 0.93 Å
• R-Value Free: 
  0.143 (Depositor), 0.140 (DCC) 
• R-Value Work: 
  0.114 (Depositor), 0.110 (DCC) 
• R-Value Observed: 
  0.114 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Bitter Gourd Trypsin Inhibitor

Suto, K., Furuichi, M., Nishimoto, E., Meno, K., Horii, K., Mizuno, H.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 7.59 kDa 
• Atom Count: 717 
• Modeled Residue Count: 68 
• Deposited Residue Count: 68 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
trypsin inhibitor BGIT	A	68	Momordica charantia	Mutation(s): 0
UniProt
Find proteins for Q7M1Q1 (Momordica charantia) Explore Q7M1Q1  Go to UniProtKB:  Q7M1Q1

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TLA	E [auth A]	L(+)-TARTARIC ACID C4 H6 O6 FEWJPZIEWOKRBE-JCYAYHJZSA-N
K	B [auth A]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N
NA	C [auth A], D [auth A]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 0.93 Å
• R-Value Free:  0.143 (Depositor), 0.140 (DCC) 
• R-Value Work:  0.114 (Depositor), 0.110 (DCC) 
• R-Value Observed: 0.114 (Depositor) 

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 22.662	α = 92.05
b = 23.023	β = 100.11
c = 27.685	γ = 101.8

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
CNS	refinement
SHELXL-97	refinement
HKL-2000	data reduction
CNS	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2005-03-22 
Deposition Author(s): Suto, K., Furuichi, M., Nishimoto, E., Meno, K., Horii, K., Mizuno, H.

Revision History  

• Version 1.0: 2005-03-22
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description
• Version 1.4: 2024-10-30
  Changes: Structure summary