1VCI | pdb_00001vci

Crystal structure of the ATP-binding cassette of multisugar transporter from Pyrococcus horikoshii OT3 complexed with ATP

• PDB DOI: https://doi.org/10.2210/pdb1VCI/pdb

• Classification: TRANSPORT PROTEIN
• Organism(s): Pyrococcus horikoshii
• Expression System: Escherichia coli BL21
• Mutation(s): No 


• Deposited: 2004-03-08 Released: 2004-12-14 
• Deposition Author(s): Ose, T., Fujie, T., Yao, M., Watanabe, N., Tanaka, I.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 
  0.297 (Depositor), 0.290 (DCC) 
• R-Value Work: 
  0.215 (Depositor), 0.200 (DCC) 

Starting Model: experimental

Literature

Crystal structure of the ATP-binding cassette of multisugar transporter from Pyrococcus horikoshii OT3

Ose, T., Fujie, T., Yao, M., Watanabe, N., Tanaka, I.

(2004) Proteins 57: 635-638

• PubMed: 15382245 
• DOI: https://doi.org/10.1002/prot.20206
• Primary Citation of Related Structures:  
  1V43, 1VCI

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Organizational Affiliation: 

Division of Biological Sciences, Graduate School of Science, Hokkaido University, Sapporo, Japan.

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: 42.63 kDa 
• Atom Count: 2,914 
• Modelled Residue Count: 353 
• Deposited Residue Count: 373 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
sugar-binding transport ATP-binding protein	A	373	Pyrococcus horikoshii	Mutation(s): 0  Gene Names: PH0022
UniProt
Find proteins for O57758 (Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)) Explore O57758  Go to UniProtKB:  O57758

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ATP	B [auth A]	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free:  0.297 (Depositor), 0.290 (DCC) 
• R-Value Work:  0.215 (Depositor), 0.200 (DCC) 

Space Group: P 4₃ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 79.84	α = 90
b = 79.84	β = 90
c = 130.08	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-14 
Deposition Author(s): Ose, T., Fujie, T., Yao, M., Watanabe, N., Tanaka, I.

Revision History  

• Version 1.0: 2004-12-14
  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