3L6W

Structure of the collar functional unit (KLH1-H) of keyhole limpet hemocyanin

• PDB DOI: https://doi.org/10.2210/pdb3L6W/pdb

• Classification: OXYGEN BINDING
• Organism(s): Megathura crenulata
• Mutation(s): No 


• Deposited: 2009-12-27 Released: 2010-02-02 
• Deposition Author(s): Jaenicke, E., Buechler, K., Markl, J., Decker, H., Barends, T.R.M.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å

Starting Model: experimental

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 3QJO

Literature

The Cupredoxin-like Domains in Hemocyanins.

Jaenicke, E., Buchler, K., Markl, J., Decker, H., Barends, T.R.M.

(2009) Biochem J 

• PubMed: 20025608 
• DOI: https://doi.org/10.1042/BJ20091501
• Primary Citation of Related Structures:  
  3L6W


• PubMed Abstract: 
  

  Haemocyanins are multimeric oxygen transport proteins, which bind oxygen to type 3 copper sites. Arthropod haemocyanins contain 75-kDa subunits, whereas molluscan haemocyanins contain 350-400-kDa subunits comprising seven or eight different 50 kDa FUs (functional units) designated FU-a to FU-h, each with an active site. FU-h possesses a tail of 100 amino acids not present in the other FUs. In the present study we show by X-ray crystallography that in FU-h of KLH1 (keyhole-limpet-haemocyanin isoform 1) the structure of the tail domain is cupredoxin-like but contains no copper. The copper-free domain 3 in arthropod haemocyanin subunits has also recently been reinterpreted as being cupredoxin-like. We propose that the cupredoxin-like domain in both haemocyanin types once served to upload copper to the active site of the oxygen-binding domain.

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Organizational Affiliation: 

Institut für Molekulare Biophysik, Johannes Gutenberg-Universität, Jakob Welder Weg 26, 55128 Mainz, Germany. [e-mail]

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: 113.25 kDa 
• Atom Count: 954 
• Modelled Residue Count: 954 
• Deposited Residue Count: 982 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hemocyanin 1	A, B	491	Megathura crenulata	Mutation(s): 0
UniProt
Find proteins for Q10583 (Megathura crenulata) Explore Q10583  Go to UniProtKB:  Q10583

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 4.00 Å
• Space Group: I 2₁ 3

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 251.02	α = 90
b = 251.02	β = 90
c = 251.02	γ = 90

Software Package:

Software Name	Purpose
MAR345	data collection
PHASER	phasing
RESOLVE	model building
DM	model building
XDS	data reduction
XSCALE	data scaling
RESOLVE	phasing
DM	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2010-02-02 
Deposition Author(s): Jaenicke, E., Buechler, K., Markl, J., Decker, H., Barends, T.R.M.

Revision History  

• Version 1.0: 2010-02-02
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2017-11-01
  Changes: Refinement description
• Version 1.3: 2023-11-01
  Changes: Data collection, Database references, Refinement description