1QK6 | pdb_00001qk6

Solution structure of huwentoxin-I by NMR

• PDB DOI: https://doi.org/10.2210/pdb1QK6/pdb

• Classification: TOXIN
• Organism(s): Cyriopagopus schmidti
• Mutation(s): No 
• Membrane Protein: Yes  OPM


• Deposited: 1999-07-10 Released: 1999-08-20 
• Deposition Author(s): Qu, Y., Liang, S., Ding, J., Liu, X., Zhang, R., Gu, X.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 10 
• Selection Criteria: STEREOCHEMICAL ENERGY AND RESULT OF PROCHECK 

Literature

Proton Nuclear Magnetic Resonance Studies on Huwentoxin-I from the Venom of the Spider Selenocosmia Huwena:2.Three-Dimensional Structure in Solution

Qu, Y., Liang, S., Ding, J., Liu, X., Zhang, R., Gu, X.

(1997) J Protein Chem 16: 565-574

• PubMed: 9263120 
• DOI: https://doi.org/10.1023/a:1026314722607
• Primary Citation Related Structures: 
  1QK6


• PubMed Abstract: 
  

  The three-dimensional structure in aqueous solution of native huwentoxin-I, a neurotoxin from the venom of the spider Selenocosmia huwena, has been determined from two-dimensional H NMR data recorded at 500 and 600 MHz. Structural constraints consisting of interproton distances inferred from NOEs and dihedral angles from spin-spin coupling constants were used as input for distance geometry calculation with the program XPLOR 3.1. The best 10 structures have NOE violations < 0.3 A, dihedral violations < 2 degrees, and pairwise root-mean-square differences of 1.08 (+/- 0.20) A over backbone atoms (N, C alpha, C). The molecule adopts a compact structure consisting of a small triple-stranded antiparallel beta-sheet and five beta-turns. A small hydrophobic patch consisting of Phe 6, Trp 28, and Trp 31 is located on one side of the molecule. All six lysine residues are distributed on the molecular surface. The three disulfide bridges are buried within the molecule. The structure contains an "inhibitor cystine knot motif" which is adopted by several other small proteins, such as omega-conotoxin, agatoxin IVA, and gurmarin.

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Organizational Affiliation: 
• Department of Biology, Peking University, Beijing, China.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 3.76 kDa 
• Atom Count: 259 
• Modeled Residue Count: 33 
• Deposited Residue Count: 33 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
HUWENTOXIN-I	A	33	Cyriopagopus schmidti	Mutation(s): 0  Membrane Entity: Yes
UniProt
Find proteins for P56676 (Cyriopagopus schmidti) Explore P56676  Go to UniProtKB:  P56676

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 50 
• Conformers Submitted: 10 
• Selection Criteria: STEREOCHEMICAL ENERGY AND RESULT OF PROCHECK 

Structure Validation

Entry History 

Deposition Data

• Released Date: 1999-08-20 
Deposition Author(s): Qu, Y., Liang, S., Ding, J., Liu, X., Zhang, R., Gu, X.

Revision History  

• Version 1.0: 1999-08-20
  Type: Initial release
  
• Version 1.1: 2011-05-08
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2019-01-16
  Changes: Data collection, Database references
• Version 1.4: 2024-10-23
  Changes: Data collection, Database references, Structure summary