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Yorodumi- PDB-1rei: THE MOLECULAR STRUCTURE OF A DIMER COMPOSED OF THE VARIABLE PORTI... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1rei | ||||||
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Title | THE MOLECULAR STRUCTURE OF A DIMER COMPOSED OF THE VARIABLE PORTIONS OF THE BENCE-JONES PROTEIN REI REFINED AT 2.0 ANGSTROMS RESOLUTION | ||||||
Components | BENCE-JONES PROTEIN REI (LIGHT CHAIN) | ||||||
Keywords | IMMUNOGLOBULIN(PART)SEQUESTERS ANTIGENS | ||||||
Function / homology | Function and homology information CD22 mediated BCR regulation / immunoglobulin complex / Fc epsilon receptor (FCERI) signaling / Classical antibody-mediated complement activation / Initial triggering of complement / FCGR activation / Role of phospholipids in phagocytosis / Role of LAT2/NTAL/LAB on calcium mobilization / Scavenging of heme from plasma / FCERI mediated Ca+2 mobilization ...CD22 mediated BCR regulation / immunoglobulin complex / Fc epsilon receptor (FCERI) signaling / Classical antibody-mediated complement activation / Initial triggering of complement / FCGR activation / Role of phospholipids in phagocytosis / Role of LAT2/NTAL/LAB on calcium mobilization / Scavenging of heme from plasma / FCERI mediated Ca+2 mobilization / FCGR3A-mediated IL10 synthesis / Antigen activates B Cell Receptor (BCR) leading to generation of second messengers / Regulation of Complement cascade / antigen binding / Cell surface interactions at the vascular wall / FCERI mediated MAPK activation / FCGR3A-mediated phagocytosis / Regulation of actin dynamics for phagocytic cup formation / FCERI mediated NF-kB activation / Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell / Potential therapeutics for SARS / adaptive immune response / blood microparticle / immune response / extracellular space / extracellular exosome / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2 Å | ||||||
Authors | Epp, O. / Lattman, E.E. / Colman, P. / Fehlhammer, H. / Bode, W. / Schiffer, M. / Huber, R. / Palm, W. | ||||||
Citation | Journal: Biochemistry / Year: 1975 Title: The molecular structure of a dimer composed of the variable portions of the Bence-Jones protein REI refined at 2.0-A resolution. Authors: Epp, O. / Lattman, E.E. / Schiffer, M. / Huber, R. / Palm, W. #1: Journal: Eur.J.Biochem. / Year: 1974 Title: Crystal and Molecular Structure of a Dimer Composed of the Variable Portions of the Bence-Jones Protein Rei Authors: Epp, O. / Colman, P. / Fehlhammer, H. / Bode, W. / Schiffer, M. / Huber, R. / Palm, W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1rei.cif.gz | 45 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1rei.ent.gz | 35.4 KB | Display | PDB format |
PDBx/mmJSON format | 1rei.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1rei_validation.pdf.gz | 374.5 KB | Display | wwPDB validaton report |
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Full document | 1rei_full_validation.pdf.gz | 393.8 KB | Display | |
Data in XML | 1rei_validation.xml.gz | 7.9 KB | Display | |
Data in CIF | 1rei_validation.cif.gz | 11.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/re/1rei ftp://data.pdbj.org/pub/pdb/validation_reports/re/1rei | HTTPS FTP |
-Related structure data
Similar structure data |
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-Links
-Assembly
Deposited unit |
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1 |
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Unit cell |
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Atom site foot note | 1: PROLINE A 8 HAS A CIS PEPTIDE BOND / 2: PROLINE A 95 HAS A CIS PEPTIDE BOND / 3: PROLINE B 8 HAS A CIS PEPTIDE BOND / 4: PROLINE B 95 HAS A CIS PEPTIDE BOND | ||||||||
Noncrystallographic symmetry (NCS) | NCS oper: (Code: given Matrix: (-0.91, -0.41511, 0.007), Vector: |
-Components
#1: Antibody | Mass: 11751.988 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / References: UniProt: P01607, UniProt: P01593*PLUS #2: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 3.46 Å3/Da / Density % sol: 64.48 % |
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Crystal grow | *PLUS Method: unknown |
-Data collection
Radiation | Scattering type: x-ray |
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Radiation wavelength | Relative weight: 1 |
Reflection | *PLUS Num. obs: 14993 / Num. measured all: 42464 |
-Processing
Refinement | Highest resolution: 2 Å Details: THE LOCAL DIAD IS NORMAL TO THE 6(1) AXIS AND INTERSECTS IT 17.05 ANGSTROMS FROM THE Z=0 PLANE IN THE +Z DIRECTION. WHEN PROJECTED ONTO THE Z=0 PLANE THE DIAD MAKES AN ANGLE OF 102.5 DEGREES ...Details: THE LOCAL DIAD IS NORMAL TO THE 6(1) AXIS AND INTERSECTS IT 17.05 ANGSTROMS FROM THE Z=0 PLANE IN THE +Z DIRECTION. WHEN PROJECTED ONTO THE Z=0 PLANE THE DIAD MAKES AN ANGLE OF 102.5 DEGREES WITH THE +X AXIS AND 17.5 DEGREES WITH THE +Y AXIS. | ||||||||||||
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Refinement step | Cycle: LAST / Highest resolution: 2 Å
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Refinement | *PLUS Rfactor obs: 0.241 | ||||||||||||
Solvent computation | *PLUS | ||||||||||||
Displacement parameters | *PLUS |