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Open data
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Basic information
Entry | Database: PDB / ID: 1opf | ||||||
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Title | THE STRUCTURE OF OMPF PORIN IN A TETRAGONAL CRYSTAL FORM | ||||||
![]() | MATRIX PORIN OUTER MEMBRANE PROTEIN F | ||||||
![]() | MEMBRANE PROTEIN | ||||||
Function / homology | ![]() colicin transmembrane transporter activity / monoatomic ion channel complex / porin activity / pore complex / protein homotrimerization / monoatomic ion transmembrane transport / lipopolysaccharide binding / cell outer membrane / disordered domain specific binding / protein transport ...colicin transmembrane transporter activity / monoatomic ion channel complex / porin activity / pore complex / protein homotrimerization / monoatomic ion transmembrane transport / lipopolysaccharide binding / cell outer membrane / disordered domain specific binding / protein transport / monoatomic ion channel activity / lipid binding / identical protein binding / membrane Similarity search - Function | ||||||
Biological species | ![]() ![]() | ||||||
Method | ![]() | ||||||
![]() | Cowan, S.W. / Schirmer, T. / Pauptit, R.A. / Jansonius, J.N. | ||||||
![]() | ![]() Title: The structure of OmpF porin in a tetragonal crystal form. Authors: Cowan, S.W. / Garavito, R.M. / Jansonius, J.N. / Jenkins, J.A. / Karlsson, R. / Konig, N. / Pai, E.F. / Pauptit, R.A. / Rizkallah, P.J. / Rosenbusch, J.P. / Rummel, G. / Schirmer, T. #1: ![]() Title: Crystal Structures Explain Functional Properties of Two E. Coli Porins Authors: Cowan, S.W. / Schirmer, T. / Rummel, G. / Steiert, M. / Ghosh, R. / Pauptit, R.A. / Jansonius, J.N. / Rosenbusch, J.P. #2: ![]() Title: A Common Channel-Forming Motif in Evolutionarily Distant Porins Authors: Pauptit, R.A. / Schirmer, T. / Jansonius, J.N. / Rosenbusch, J.P. / Parker, M.W. / Tucker, A.D. / Tsernoglou, D. / Weiss, M.S. / Schulz, G.E. #3: ![]() Title: The Growth and Characterization of Membrane Protein Crystals Authors: Garavito, R.M. / Markovic-Housley, Z. / Jenkins, J.A. #4: ![]() Title: X-Ray Diffraction Analysis of Matrix Porin, an Integral Membrane Protein from Escherichia Coli Outer Membranes Authors: Garavito, R.M. / Jenkins, J. / Jansonius, J.N. / Karlsson, R. / Rosenbusch, J.P. #5: ![]() Title: Three-Dimensional Crystals of an Integral Membrane Protein: An Initial X-Ray Analysis Authors: Garavito, R.M. / Rosenbusch, J.P. | ||||||
History |
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Structure visualization
Structure viewer | Molecule: ![]() ![]() |
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Downloads & links
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Download
PDBx/mmCIF format | ![]() | 344.7 KB | Display | ![]() |
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PDB format | ![]() | 291.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 407.1 KB | Display | ![]() |
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Full document | ![]() | 451.1 KB | Display | |
Data in XML | ![]() | 43.4 KB | Display | |
Data in CIF | ![]() | 54.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
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 | THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT CONTAINS TWO TRIMERS. THE TRANSFORMATIONS PRESENTED ON MTRIX RECORDS BELOW WILL YIELD APPROXIMATE COORDINATES FOR THE OTHER FIVE MONOMERS IN THE ASYMMETRIC UNIT WHEN APPLIED TO THE COORDINATES IN THIS ENTRY. |
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Components
#1: Protein | Mass: 37114.250 Da / Num. of mol.: 6 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() |
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-Experimental details
-Experiment
Experiment | Method: ![]() |
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Sample preparation
Crystal | Density Matthews: 4.64 Å3/Da / Density % sol: 73.48 % | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Temperature: 21-23 ℃ / Method: vapor diffusionDetails: Garavito, R.M., (1986) Methods Enzymol., 125, 309. PH range low: 7 / PH range high: 6.5 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
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-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | Num. obs: 56516 / % possible obs: 87 % |
Reflection | *PLUS Highest resolution: 3.2 Å / Redundancy: 2.4 % / Num. measured all: 133465 / Rmerge(I) obs: 0.125 |
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Processing
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Refinement | Resolution: 3.2→10 Å /
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Displacement parameters | Biso mean: 33 Å2 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3.2→10 Å
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Refine LS restraints |
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