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Yorodumi- PDB-1qmc: C-terminal DNA-binding domain of HIV-1 integrase, NMR, 42 structures -
+Open data
-Basic information
Entry | Database: PDB / ID: 1qmc | ||||||
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Title | C-terminal DNA-binding domain of HIV-1 integrase, NMR, 42 structures | ||||||
Components | HIV-1 INTEGRASE | ||||||
Keywords | TRANSFERASE / INTEGRASE / DNA-BINDING PROTEIN / SRC HOMOLOGY 3 (SH3)-LIKE FOLD / AIDS / POLYPROTEIN | ||||||
Function / homology | Function and homology information HIV-1 retropepsin / symbiont-mediated activation of host apoptosis / retroviral ribonuclease H / exoribonuclease H / exoribonuclease H activity / host multivesicular body / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency ...HIV-1 retropepsin / symbiont-mediated activation of host apoptosis / retroviral ribonuclease H / exoribonuclease H / exoribonuclease H activity / host multivesicular body / DNA integration / viral genome integration into host DNA / RNA-directed DNA polymerase / establishment of integrated proviral latency / viral penetration into host nucleus / RNA stem-loop binding / symbiont-mediated suppression of host gene expression / RNA-directed DNA polymerase activity / host cell / RNA-DNA hybrid ribonuclease activity / Transferases; Transferring phosphorus-containing groups; Nucleotidyltransferases / viral nucleocapsid / DNA recombination / DNA-directed DNA polymerase / Hydrolases; Acting on ester bonds / aspartic-type endopeptidase activity / DNA-directed DNA polymerase activity / symbiont entry into host cell / lipid binding / host cell nucleus / host cell plasma membrane / structural molecule activity / virion membrane / proteolysis / DNA binding / zinc ion binding / membrane Similarity search - Function | ||||||
Biological species | HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 BH10 | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Eijkelenboom, A.P.A.M. / Sprangers, R. / Hard, K. / Puras Lutzke, R.A. / Plasterk, R.H.A. / Boelens, R. / Kaptein, R. | ||||||
Citation | Journal: Proteins: Struct.,Funct., Genet. / Year: 1999 Title: Refined Solution Structure of the C-Terminal DNA-Binding Domain of Human Immunovirus-1 Integrase. Authors: Eijkelenboom, A.P.A.M. / Sprangers, R. / Hard, K. / Puras Lutzke, R.A. / Plasterk, R.H.A. / Boelens, R. / Kaptein, R. #1: Journal: Nat.Struct.Biol. / Year: 1995 Title: The DNA-Binding Domain of HIV-1 Integrase Has an SH3-Like Fold Authors: Eijkelenboom, A.P.A.M. / Puras Lutzke, R.A. / Boelens, R. / Plasterk, R.H.A. / Kaptein, R. / Hard, K. | ||||||
History |
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Remark 700 | SHEET THE FIVE-STRANDED SHEET STRUCTURE OF THIS MOLECULE CONTAINS TWO BIFURCATED SHEETS IN THIS ... SHEET THE FIVE-STRANDED SHEET STRUCTURE OF THIS MOLECULE CONTAINS TWO BIFURCATED SHEETS IN THIS STRUCTURE. EACH IS REPRESENTED BY SHEETS WHICH HAVE ONE OR MORE IDENTICAL STRANDS. SHEETS AB AND AC (CHAIN A) REPRESENT THE BIFURCATED CONTRIBUTIONS TO THE MAIN 5-STRANDED SHEET STRUCTURE. |
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 1qmc.cif.gz | 1.4 MB | Display | PDBx/mmCIF format |
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PDB format | pdb1qmc.ent.gz | 1.2 MB | Display | PDB format |
PDBx/mmJSON format | 1qmc.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/qm/1qmc ftp://data.pdbj.org/pub/pdb/validation_reports/qm/1qmc | HTTPS FTP |
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-Related structure data
Related structure data | |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 6152.228 Da / Num. of mol.: 2 / Fragment: C-TERMINAL DNA-BINDING DOMAIN Source method: isolated from a genetically manipulated source Source: (gene. exp.) HUMAN IMMUNODEFICIENCY VIRUS TYPE 1 BH10 Production host: ESCHERICHIA COLI (E. coli) / References: UniProt: P03366 |
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-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR |
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NMR details | Text: MODEL 1 IS CLOSEST TO THE AVERAGE FOR RESIDUES 220-270. RESIDUE 219 IS DISORDERED. |
-Sample preparation
Sample conditions | pH: 4.7 / Temperature: 298 K |
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Crystal grow | *PLUS Method: other / Details: NMR |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 1 Details: REFINEMENT DETAILS CAN BE FOUND IN THE JRNL CITATION ABOVE. | ||||||||||||
NMR ensemble | Conformer selection criteria: LOW OVERALL ENERGY / Conformers calculated total number: 50 / Conformers submitted total number: 42 |