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Yorodumi- PDB-7pqo: Catalytic fragment of MASP-1 in complex with P1 site mutant ecotin -
+Open data
-Basic information
Entry | Database: PDB / ID: 7pqo | |||||||||||||||||||||
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Title | Catalytic fragment of MASP-1 in complex with P1 site mutant ecotin | |||||||||||||||||||||
Components |
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Keywords | IMMUNE SYSTEM / serine protease / complement / inhibitor | |||||||||||||||||||||
Function / homology | Function and homology information Ficolins bind to repetitive carbohydrate structures on the target cell surface / Lectin pathway of complement activation / negative regulation of complement activation / complement activation, lectin pathway / zymogen activation / Scavenging by Class A Receptors / Initial triggering of complement / Hydrolases; Acting on peptide bonds (peptidases); Serine endopeptidases / serine-type endopeptidase inhibitor activity / defense response ...Ficolins bind to repetitive carbohydrate structures on the target cell surface / Lectin pathway of complement activation / negative regulation of complement activation / complement activation, lectin pathway / zymogen activation / Scavenging by Class A Receptors / Initial triggering of complement / Hydrolases; Acting on peptide bonds (peptidases); Serine endopeptidases / serine-type endopeptidase inhibitor activity / defense response / calcium-dependent protein binding / peptidase activity / outer membrane-bounded periplasmic space / serine-type endopeptidase activity / calcium ion binding / SARS-CoV-2 activates/modulates innate and adaptive immune responses / protein homodimerization activity / extracellular space / extracellular region / nucleoplasm / identical protein binding / cytosol Similarity search - Function | |||||||||||||||||||||
Biological species | Homo sapiens (human) Escherichia coli (E. coli) | |||||||||||||||||||||
Method | X-RAY DIFFRACTION / SYNCHROTRON / MOLECULAR REPLACEMENT / Resolution: 3.39 Å | |||||||||||||||||||||
Authors | Harmat, V. / Fodor, K. / Heja, D. | |||||||||||||||||||||
Funding support | Hungary, 6items
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Citation | Journal: J.Biol.Chem. / Year: 2022 Title: Synergy of protease-binding sites within the ecotin homodimer is crucial for inhibition of MASP enzymes and for blocking lectin pathway activation. Authors: Nagy, Z.A. / Heja, D. / Bencze, D. / Kiss, B. / Boros, E. / Szakacs, D. / Fodor, K. / Wilmanns, M. / Kocsis, A. / Dobo, J. / Gal, P. / Harmat, V. / Pal, G. #1: Journal: Acta Crystallogr D Biol Crystallogr / Year: 2012 Title: Towards automated crystallographic structure refinement with phenix.refine. Authors: Afonine, P.V. / Grosse-Kunstleve, R.W. / Echols, N. / Headd, J.J. / Moriarty, N.W. / Mustyakimov, M. / Terwilliger, T.C. / Urzhumtsev, A. / Zwart, P.H. / Adams, P.D. #2: Journal: Acta Crystallogr D Biol Crystallogr / Year: 2010 Title: PHENIX: a comprehensive Python-based system for macromolecular structure solution. Authors: Paul D Adams / Pavel V Afonine / Gábor Bunkóczi / Vincent B Chen / Ian W Davis / Nathaniel Echols / Jeffrey J Headd / Li-Wei Hung / Gary J Kapral / Ralf W Grosse-Kunstleve / Airlie J McCoy ...Authors: Paul D Adams / Pavel V Afonine / Gábor Bunkóczi / Vincent B Chen / Ian W Davis / Nathaniel Echols / Jeffrey J Headd / Li-Wei Hung / Gary J Kapral / Ralf W Grosse-Kunstleve / Airlie J McCoy / Nigel W Moriarty / Robert Oeffner / Randy J Read / David C Richardson / Jane S Richardson / Thomas C Terwilliger / Peter H Zwart / Abstract: Macromolecular X-ray crystallography is routinely applied to understand biological processes at a molecular level. However, significant time and effort are still required to solve and complete many ...Macromolecular X-ray crystallography is routinely applied to understand biological processes at a molecular level. However, significant time and effort are still required to solve and complete many of these structures because of the need for manual interpretation of complex numerical data using many software packages and the repeated use of interactive three-dimensional graphics. PHENIX has been developed to provide a comprehensive system for macromolecular crystallographic structure solution with an emphasis on the automation of all procedures. This has relied on the development of algorithms that minimize or eliminate subjective input, the development of algorithms that automate procedures that are traditionally performed by hand and, finally, the development of a framework that allows a tight integration between the algorithms. #4: Journal: Acta Crystallogr D Biol Crystallogr / Year: 2010 Title: Molecular replacement with MOLREP. Authors: Vagin, A. / Teplyakov, A. #5: Journal: PLoS Pathog / Year: 2019 Title: Ecotin, a microbial inhibitor of serine proteases, blocks multiple complement dependent and independent microbicidal activities of human serum. Authors: Nagy, Z.A. / Szakacs, D. / Boros, E. / Heja, D. / Vigh, E. / Sandor, N. / Jozsi, M. / Oroszlan, G. / Dobo, J. / Gal, P. / Pal, G. | |||||||||||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 7pqo.cif.gz | 720 KB | Display | PDBx/mmCIF format |
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PDB format | pdb7pqo.ent.gz | Display | PDB format | |
PDBx/mmJSON format | 7pqo.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 7pqo_validation.pdf.gz | 490.2 KB | Display | wwPDB validaton report |
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Full document | 7pqo_full_validation.pdf.gz | 505 KB | Display | |
Data in XML | 7pqo_validation.xml.gz | 53.3 KB | Display | |
Data in CIF | 7pqo_validation.cif.gz | 71.8 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/pq/7pqo ftp://data.pdbj.org/pub/pdb/validation_reports/pq/7pqo | HTTPS FTP |
-Related structure data
Related structure data | 7pqnC 1azzS 3govS S: Starting model for refinement C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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Unit cell |
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Noncrystallographic symmetry (NCS) | NCS domain:
NCS domain segments:
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