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Yorodumi- PDB-1gss: THREE-DIMENSIONAL STRUCTURE OF CLASS PI GLUTATHIONE S-TRANSFERASE... -
+Open data
-Basic information
Entry | Database: PDB / ID: 1gss | ||||||
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Title | THREE-DIMENSIONAL STRUCTURE OF CLASS PI GLUTATHIONE S-TRANSFERASE FROM HUMAN PLACENTA IN COMPLEX WITH S-HEXYLGLUTATHIONE AT 2.8 ANGSTROMS RESOLUTION | ||||||
Components | GLUTATHIONE S-TRANSFERASE | ||||||
Keywords | TRANSFERASE/TRANSFERASE INHIBITOR / GLUTATHIONE / TRANSFERASE-TRANSFERASE INHIBITOR complex | ||||||
Function / homology | Function and homology information S-nitrosoglutathione binding / nitric oxide storage / negative regulation of biosynthetic process / TRAF2-GSTP1 complex / kinase regulator activity / negative regulation of leukocyte proliferation / dinitrosyl-iron complex binding / common myeloid progenitor cell proliferation / glutathione derivative biosynthetic process / negative regulation of nitric-oxide synthase biosynthetic process ...S-nitrosoglutathione binding / nitric oxide storage / negative regulation of biosynthetic process / TRAF2-GSTP1 complex / kinase regulator activity / negative regulation of leukocyte proliferation / dinitrosyl-iron complex binding / common myeloid progenitor cell proliferation / glutathione derivative biosynthetic process / negative regulation of nitric-oxide synthase biosynthetic process / negative regulation of JUN kinase activity / nitric oxide binding / Glutathione conjugation / negative regulation of monocyte chemotactic protein-1 production / JUN kinase binding / Paracetamol ADME / glutathione peroxidase activity / negative regulation of stress-activated MAPK cascade / negative regulation of interleukin-1 beta production / negative regulation of MAPK cascade / regulation of stress-activated MAPK cascade / prostaglandin metabolic process / Detoxification of Reactive Oxygen Species / negative regulation of acute inflammatory response / glutathione transferase / negative regulation of tumor necrosis factor production / glutathione transferase activity / negative regulation of tumor necrosis factor-mediated signaling pathway / regulation of ERK1 and ERK2 cascade / hepoxilin biosynthetic process / negative regulation of fibroblast proliferation / positive regulation of superoxide anion generation / negative regulation of canonical NF-kappaB signal transduction / linoleic acid metabolic process / negative regulation of MAP kinase activity / glutathione metabolic process / xenobiotic metabolic process / central nervous system development / fatty acid binding / response to reactive oxygen species / negative regulation of extrinsic apoptotic signaling pathway / negative regulation of protein kinase activity / negative regulation of ERK1 and ERK2 cascade / cellular response to lipopolysaccharide / secretory granule lumen / vesicle / ficolin-1-rich granule lumen / Neutrophil degranulation / negative regulation of apoptotic process / mitochondrion / extracellular space / extracellular exosome / extracellular region / nucleus / cytoplasm / cytosol Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | X-RAY DIFFRACTION / Resolution: 2.8 Å | ||||||
Authors | Reinemer, P. / Dirr, H.W. / Ladenstein, R. / Lobello, M. / Federici, G. / Huber, R. / Parker, M.W. | ||||||
Citation | Journal: J.Mol.Biol. / Year: 1992 Title: Three-dimensional structure of class pi glutathione S-transferase from human placenta in complex with S-hexylglutathione at 2.8 A resolution. Authors: Reinemer, P. / Dirr, H.W. / Ladenstein, R. / Huber, R. / Lo Bello, M. / Federici, G. / Parker, M.W. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1gss.cif.gz | 98.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb1gss.ent.gz | 76.1 KB | Display | PDB format |
PDBx/mmJSON format | 1gss.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 1gss_validation.pdf.gz | 463 KB | Display | wwPDB validaton report |
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Full document | 1gss_full_validation.pdf.gz | 480.5 KB | Display | |
Data in XML | 1gss_validation.xml.gz | 12.4 KB | Display | |
Data in CIF | 1gss_validation.cif.gz | 18.7 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/gs/1gss ftp://data.pdbj.org/pub/pdb/validation_reports/gs/1gss | 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: CIS PROLINE - PRO A 2 / 2: CIS PROLINE - PRO A 51 3: ARG A 184 - PRO A 185 OMEGA =216.16 PEPTIDE BOND DEVIATES SIGNIFICANTLY FROM TRANS CONFORMATION 4: CIS PROLINE - PRO B 2 / 5: CIS PROLINE - PRO B 51 6: THE INHIBITOR S-HEXYLGLUTATHIONE, CHAINS I AND J HAS THE FOLLOWING STRUCTURE: O O O 0 O-C-C(A)H-C(B)H2-C(G)H2-C-N-C(A)H-C-N-C(A)H2-C-0 N C(B) H3+ H2 S(G)-C6H13 |
-Components
#1: Protein | Mass: 23246.570 Da / Num. of mol.: 2 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Tissue: placenta / References: UniProt: P09211, glutathione transferase #2: Chemical | #3: Water | ChemComp-HOH / | |
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-Experimental details
-Experiment
Experiment | Method: X-RAY DIFFRACTION |
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-Sample preparation
Crystal | Density Matthews: 2.31 Å3/Da / Density % sol: 46.78 % | |||||||||||||||||||||||||||||||||||||||||||||
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Crystal grow | *PLUS Method: vapor diffusion, hanging drop | |||||||||||||||||||||||||||||||||||||||||||||
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 | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 9999 Å / Num. obs: 11181 / % possible obs: 94.3 % / Observed criterion σ(I): 0 / Num. measured all: 26034 / Rmerge(I) obs: 0.103 |
-Processing
Software |
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Refinement | Resolution: 2.8→8 Å /
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Refinement step | Cycle: LAST / Resolution: 2.8→8 Å
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Refine LS restraints |
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Refinement | *PLUS Highest resolution: 2.8 Å / Lowest resolution: 8 Å / Rfactor obs: 0.196 / Num. reflection obs: 11181 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
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