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- PDB-1hip: TWO-ANGSTROM CRYSTAL STRUCTURE OF OXIDIZED CHROMATIUM HIGH POTENT... -

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Basic information

Entry
Database: PDB / ID: 1hip
TitleTWO-ANGSTROM CRYSTAL STRUCTURE OF OXIDIZED CHROMATIUM HIGH POTENTIAL IRON PROTEIN
ComponentsHIGH POTENTIAL IRON PROTEIN
KeywordsELECTRON TRANSFER (IRON-SULFUR PROTEIN)
Function / homology
Function and homology information


aerobic electron transport chain / 4 iron, 4 sulfur cluster binding / electron transfer activity / periplasmic space / metal ion binding
Similarity search - Function
High potential iron-sulphur protein / High-Potential Iron-Sulfur Protein; Chain A / High potential iron-sulfur protein / High potential iron-sulphur protein / High potential iron-sulphur protein superfamily / High potential iron-sulfur proteins family profile. / Twin arginine translocation (Tat) signal profile. / Twin-arginine translocation pathway, signal sequence / Few Secondary Structures / Irregular
Similarity search - Domain/homology
IRON/SULFUR CLUSTER / High-potential iron-sulfur protein
Similarity search - Component
Biological speciesAllochromatium vinosum (bacteria)
MethodX-RAY DIFFRACTION / Resolution: 2 Å
AuthorsCarterjunior, C.W. / Kraut, J. / Freer, S.T. / Xuong, N.-H. / Alden, R.A. / Bartsch, R.G.
Citation
Journal: J.Biol.Chem. / Year: 1974
Title: Two-Angstrom crystal structure of oxidized Chromatium high potential iron protein.
Authors: Carter Jr., C.W. / Kraut, J. / Freer, S.T. / Xuong, N.H. / Alden, R.A. / Bartsch, R.G.
#1: Journal: J.Biol.Chem. / Year: 1975
Title: Crystallographic Structure Refinement of Chromatium High Potential Iron Protein at Two Angstroms Resolution
Authors: Freer, S.T. / Alden, R.A. / Carterjunior, C.W. / Kraut, J.
#2: Journal: J.Biol.Chem. / Year: 1974
Title: Comparison of Oxidation-Reduction Site Geometries in Oxidized and Reduced Chromatium High Potential Iron Protein and Oxidized Peptococcus Aerogenes Ferredoxin
Authors: Carterjunior, C.W. / Kraut, J. / Freer, S.T. / Alden, R.A.
#3: Journal: Cold Spring Harbor Symp.Quant.Biol. / Year: 1972
Title: Structure of the Iron-Sulfur Cluster in the Chromatium Iron Protein at 2.25 Angstroms Resolution
Authors: Carterjunior, C.W. / Freer, S.T. / Xuong, N.H. / Alden, R.A. / Kraut, J.
#4: Journal: Atlas of Macromolecular Structure on Microfiche / Year: 1976
#5: Journal: Atlas of Protein Sequence and Structure,Supplement 2
Year: 1976
History
DepositionApr 1, 1975Processing site: BNL
Revision 1.0Nov 22, 1976Provider: repository / Type: Initial release
Revision 1.1Mar 24, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Feb 7, 2024Group: Data collection / Database references ...Data collection / Database references / Derived calculations / Other
Category: chem_comp_atom / chem_comp_bond ...chem_comp_atom / chem_comp_bond / database_2 / pdbx_database_status / struct_site
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession ..._database_2.pdbx_DOI / _database_2.pdbx_database_accession / _pdbx_database_status.process_site / _struct_site.pdbx_auth_asym_id / _struct_site.pdbx_auth_comp_id / _struct_site.pdbx_auth_seq_id

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: HIGH POTENTIAL IRON PROTEIN
hetero molecules


Theoretical massNumber of molelcules
Total (without water)9,2652
Polymers8,9131
Non-polymers3521
Water1,35175
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
Unit cell
Length a, b, c (Å)42.700, 41.860, 38.080
Angle α, β, γ (deg.)90.00, 90.00, 90.00
Int Tables number19
Space group name H-MP212121

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Components

#1: Protein HIGH POTENTIAL IRON PROTEIN


Mass: 8912.928 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Allochromatium vinosum (bacteria) / References: UniProt: P00260
#2: Chemical ChemComp-SF4 / IRON/SULFUR CLUSTER / Iron–sulfur cluster


Mass: 351.640 Da / Num. of mol.: 1 / Source method: obtained synthetically / Formula: Fe4S4
#3: Water ChemComp-HOH / water / Water


Mass: 18.015 Da / Num. of mol.: 75 / Source method: isolated from a natural source / Formula: H2O

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Experimental details

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Experiment

ExperimentMethod: X-RAY DIFFRACTION

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Sample preparation

CrystalDensity Matthews: 1.91 Å3/Da / Density % sol: 35.54 %
Crystal
*PLUS
Density % sol: 30 %
Crystal grow
*PLUS
pH: 7.9 / Method: unknown
Components of the solutions
*PLUS
IDConc.Common nameCrystal-IDSol-IDChemical formulaDetails
110 mg/mlprotein11
20.1 M11NaOH
30.67 ammonium sulfate11saturated

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Data collection

RadiationScattering type: x-ray
Radiation wavelengthRelative weight: 1
Reflection
*PLUS
Highest resolution: 2 Å / Num. measured all: 4918

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Processing

RefinementHighest resolution: 2 Å
Refinement stepCycle: LAST / Highest resolution: 2 Å
ProteinNucleic acidLigandSolventTotal
Num. atoms617 0 8 75 700
Refinement
*PLUS
Rfactor obs: 0.24
Solvent computation
*PLUS
Displacement parameters
*PLUS

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