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Open data
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Basic information
Entry | Database: PDB / ID: 3hip | ||||||
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Title | HIGH-POTENTIAL IRON-SULFUR PROTEIN FROM CHROMATIUM PURPURATUM | ||||||
![]() | HIGH-POTENTIAL IRON-SULFUR PROTEIN | ||||||
![]() | ELECTRON TRANSFER / PHOTOSYNTHESIS / METALLOPROTEIN | ||||||
Function / homology | ![]() aerobic electron transport chain / 4 iron, 4 sulfur cluster binding / periplasmic space / electron transfer activity / metal ion binding Similarity search - Function | ||||||
Biological species | ![]() | ||||||
Method | ![]() ![]() | ||||||
![]() | Kerfeld, C.A. / Salmeen, A.E. / Yeates, T.O. | ||||||
![]() | ![]() Title: Crystal structure and possible dimerization of the high-potential iron-sulfur protein from Chromatium purpuratum. Authors: Kerfeld, C.A. / Salmeen, A.E. / Yeates, T.O. #1: ![]() Title: Isolation and Characterization of Soluble Electron Transfer Proteins from Chromatium Purpuratum Authors: Kerfeld, C.A. / Chan, C. / Hirasawa, M. / Kleis-Sanfrancisco, S. / Yeates, T.O. / Knaff, D.B. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 54.3 KB | Display | ![]() |
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PDB format | ![]() | 39.7 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 399.8 KB | Display | ![]() |
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Full document | ![]() | 401.2 KB | Display | |
Data in XML | ![]() | 5.9 KB | Display | |
Data in CIF | ![]() | 8.8 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 1hipS S: Starting model for refinement |
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Similar structure data |
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Links
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Assembly
Deposited unit | ![]()
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1 | ![]()
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2 | ![]()
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS oper:
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Details | MOLECULES B AND C ARE RELATED BY A NONCRYSTALLOGRAPHIC TWO-FOLD SYMMETRY AXIS. |
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Components
#1: Protein | Mass: 8761.788 Da / Num. of mol.: 3 / Source method: isolated from a natural source / Source: (natural) ![]() #2: Chemical | Sequence details | THE FIRST 25 AMINO ACIDS OF C. PURPURATUM HIPIP WERE DETERMINED BY AUTOMATED EDMAN DEGRADATION (REF. ...THE FIRST 25 AMINO ACIDS OF C. PURPURATUM | |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 1.9 Å3/Da / Density % sol: 34 % | ||||||||||||||||||||
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Crystal grow | Method: vapor diffusion, hanging drop / pH: 5.4 Details: CRYSTALLIZED BY VAPOR DIFFUSION OVER A RESERVOIR CONTAINING 100 MM CITRATE BUFFER, PH 5.4 AND 3.2 M AMMONIUM SULFATE PROTEIN CONCENTRATION = 8.0 MG/ML, vapor diffusion - hanging drop | ||||||||||||||||||||
Crystal | *PLUS | ||||||||||||||||||||
Crystal grow | *PLUS pH: 8 / Method: vapor diffusion, hanging drop | ||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Diffraction | Mean temperature: 298 K |
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Diffraction source | Source: ![]() |
Detector | Type: RIGAKU / Detector: IMAGE PLATE / Date: Jan 1, 1995 / Details: COLLIMATOR |
Radiation | Monochromator: GRAPHITE(002) / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Highest resolution: 2.7 Å / Num. obs: 6568 / % possible obs: 94.1 % / Observed criterion σ(I): 0 / Redundancy: 5.7 % / Biso Wilson estimate: 24.9 Å2 / Rmerge(I) obs: 0.116 / Net I/σ(I): 6.9 |
Reflection shell | Resolution: 2.8→2.91 Å / Redundancy: 1.9 % / Rmerge(I) obs: 0.234 / Mean I/σ(I) obs: 3.3 / % possible all: 93 |
Reflection | *PLUS Lowest resolution: 8 Å / Num. measured all: 13850 |
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Processing
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Refinement | Method to determine structure: ![]() Starting model: 1HIP Resolution: 2.8→8 Å / Data cutoff high absF: 1000000000 / Data cutoff low absF: 0 / Cross valid method: THROUGHOUT / σ(F): 0 Details: STRICT NCS RELEASED ONLY FOR LAST CYCLE OF REFINEMENT RESIDUE 127 HAS SIGNIFICANT ELECTRON DENSITY FOR THE SIDE-CHAIN BUT HAS A LARGE B FACTOR.
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Displacement parameters | Biso mean: 18.2 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 2.8→8 Å
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Refine LS restraints |
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LS refinement shell | Resolution: 2.8→2.9 Å / Total num. of bins used: 8
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Xplor file |
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Software | *PLUS Name: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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