8GT0 | pdb_00008gt0

Structure of falcipain and human Stefin A complex

• PDB DOI: https://doi.org/10.2210/pdb8GT0/pdb

• Classification: HYDROLASE
• Organism(s): Plasmodium falciparum, Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-09-07 Released: 2023-09-13 
• Deposition Author(s): Chakraborty, S., Biswas, S.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.28 Å
• R-Value Free: 
  0.299 (Depositor), 0.305 (DCC) 
• R-Value Work: 
  0.278 (Depositor), 0.286 (DCC) 
• R-Value Observed: 
  0.279 (Depositor) 

Literature

Structure of falcipain and human Stefin A complex

Chakraborty, S., Biswas, S.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly 3  

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

Biological assembly 3 assigned by authors and generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 124.9 kDa 
• Atom Count: 7,032 
• Modeled Residue Count: 696 
• Deposited Residue Count: 919 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Cysteine protease falcipain-2	A, C, E	241	Plasmodium falciparum	Mutation(s): 0  EC: 3.4.22
UniProt
Find proteins for Q8I6U4 (Plasmodium falciparum (isolate 3D7)) Explore Q8I6U4  Go to UniProtKB:  Q8I6U4

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Cystatin-A	B, D	98	Homo sapiens	Mutation(s): 0  Gene Names: CSTA, STF1, STFA
UniProt & NIH Common Fund Data Resources
Find proteins for P01040 (Homo sapiens) Explore P01040  Go to UniProtKB:  P01040
PHAROS:  P01040 GTEx:  ENSG00000121552

Small Molecules

Ligands 8 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PE8 (Subject of Investigation/LOI)	AA [auth A], BA [auth A], CA [auth A], DB [auth B], DC [auth B], KD [auth C], LD [auth C], TB [auth B], UB [auth B], VB [auth B], WF [auth E], XF [auth E], YF [auth E]	3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL C16 H34 O9 GLZWNFNQMJAZGY-UHFFFAOYSA-N
PG4 (Subject of Investigation/LOI)	AC [auth B], AE [auth C], AF [auth D], BC [auth B], CB [auth B], GA [auth A], GE [auth D], GF [auth D], HA [auth A], IA [auth A], JA [auth A], KA [auth A], KE [auth D], LA [auth A], LF [auth E], MA [auth A], ND [auth C], OD [auth C], PA [auth A], PD [auth C], QA [auth A], QD [auth C], VD [auth C], VE [auth D], WA [auth A], WE [auth D], XB [auth B], XE [auth D], YB [auth B], YE [auth D], ZB [auth B]	TETRAETHYLENE GLYCOL C8 H18 O5 UWHCKJMYHZGTIT-UHFFFAOYSA-N
PEG (Subject of Investigation/LOI)	CE [auth C], CF [auth D], DE [auth C], ED [auth C], FD [auth C], GD [auth C], HD [auth C], ID [auth C], JD [auth C], LC [auth B], NA [auth A], SB [auth B], SF [auth E], TA [auth A], TD [auth C], TF [auth E], UA [auth A], UE [auth D], UF [auth E], VF [auth E], W [auth A], X [auth A], Y [auth A], Z [auth A]	DI(HYDROXYETHYL)ETHER C4 H10 O3 MTHSVFCYNBDYFN-UHFFFAOYSA-N
SO4 (Subject of Investigation/LOI)	FF [auth D], RB [auth B], RE [auth D], RF [auth E], SE [auth D], TE [auth D], ZD [auth C]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
GOL (Subject of Investigation/LOI)	AB [auth B], AD [auth C], BE [auth C], BF [auth D], CC [auth B], DF [auth D], EB [auth B], EC [auth B], EE [auth C], F [auth A], FB [auth B], FE [auth C], G [auth A], GB [auth B], GC [auth B], H [auth A], HB [auth B], HC [auth B], I [auth A], IB [auth B], IC [auth B], IE [auth D], J [auth A], JB [auth B], JC [auth B], K [auth A], KB [auth B], KC [auth B], L [auth A], LB [auth B], LE [auth D], M [auth A], MB [auth B], MC [auth B], ME [auth D], MF [auth E], N [auth A], NB [auth B], NE [auth D], NF [auth E], O [auth A], OB [auth B], OE [auth D], OF [auth E], P [auth A], PE [auth D], Q [auth A], QC [auth C], R [auth A], RC [auth C], S [auth A], SA [auth A], SC [auth C], TC [auth C], UC [auth C], UD [auth C], VC [auth C], WC [auth C], XA [auth A], XC [auth C], YA [auth A], YC [auth C], ZA [auth B], ZC [auth C]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
EDO (Subject of Investigation/LOI)	BB [auth B], DA [auth A], EA [auth A], FA [auth A], MD [auth C], OA [auth A], RD [auth C], SD [auth C], VA [auth A], WB [auth B], XD [auth C]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
CL	ZE [auth D]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M
NA	BD [auth C], CD [auth C], DD [auth C], EF [auth D], FC [auth B], HE [auth D], HF [auth D], IF [auth D], JE [auth D], JF [auth D], KF [auth D], NC [auth B], OC [auth B], PB [auth B], PC [auth B], PF [auth E], QB [auth B], QE [auth D], QF [auth E], RA [auth A], T [auth A], U [auth A], V [auth A], WD [auth C], YD [auth C]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.28 Å
• R-Value Free:  0.299 (Depositor), 0.305 (DCC) 
• R-Value Work:  0.278 (Depositor), 0.286 (DCC) 
• R-Value Observed: 0.279 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 65.1	α = 90
b = 118.063	β = 90
c = 119.34	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
MOLREP	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-09-13 
Deposition Author(s): Chakraborty, S., Biswas, S.

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Funding Organization	Location	Grant Number
Other government	India	--

Revision History  

• Version 1.0: 2023-09-13
  Type: Initial release
  
• Version 1.1: 2024-10-30
  Changes: Structure summary