7X4S | pdb_00007x4s

Crystal structure of Rhodostomin ARGDMP mutant

• PDB DOI: https://doi.org/10.2210/pdb7X4S/pdb

• Classification: BLOOD CLOTTING
• Organism(s): Calloselasma rhodostoma
• Expression System: Pichia
• Mutation(s): Yes 


• Deposited: 2022-03-03 Released: 2023-03-08 
• Deposition Author(s): Chang, Y.T., Chuang, W.J.
• Funding Organization(s): Ministry of Science and Technology (MoST, Taiwan)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 
  0.303 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.223 (Depositor), 0.220 (DCC) 
• R-Value Observed: 
  0.227 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of Rhodostomin ARGDMP mutant

Chang, Y.T., Chuang, W.J.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 14.63 kDa 
• Atom Count: 1,068 
• Modeled Residue Count: 131 
• Deposited Residue Count: 136 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Disintegrin rhodostomin	A, B	68	Calloselasma rhodostoma	Mutation(s): 1
UniProt
Find proteins for P30403 (Calloselasma rhodostoma) Explore P30403  Go to UniProtKB:  P30403

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free:  0.303 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.223 (Depositor), 0.220 (DCC) 
• R-Value Observed: 0.227 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.499	α = 90
b = 61.334	β = 105.3
c = 34.644	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
HKL-2000	data reduction
HKL-2000	data scaling
HKL-3000	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-03-08 
Deposition Author(s): Chang, Y.T., Chuang, W.J.

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Funding Organization	Location	Grant Number
Ministry of Science and Technology (MoST, Taiwan)	Taiwan	--

Revision History  

• Version 1.0: 2023-03-08
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description
• Version 1.2: 2024-10-16
  Changes: Structure summary