+Open data
-Basic information
Entry | Database: PDB / ID: 6xmn | ||||||
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Title | Solution NMR CXCL8-CXCR1 N-domain complex structure | ||||||
Components |
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Keywords | CYTOKINE / Chemokine / CXCL8 / CXCR1 / CXCL8-CXCR1 N-domain complex | ||||||
Function / homology | Function and homology information interleukin-8 receptor activity / regulation of single stranded viral RNA replication via double stranded DNA intermediate / regulation of entry of bacterium into host cell / interleukin-8 receptor binding / interleukin-8 binding / positive regulation of cellular biosynthetic process / chemokine receptor activity / negative regulation of cell adhesion molecule production / negative regulation of G protein-coupled receptor signaling pathway / ATF4 activates genes in response to endoplasmic reticulum stress ...interleukin-8 receptor activity / regulation of single stranded viral RNA replication via double stranded DNA intermediate / regulation of entry of bacterium into host cell / interleukin-8 receptor binding / interleukin-8 binding / positive regulation of cellular biosynthetic process / chemokine receptor activity / negative regulation of cell adhesion molecule production / negative regulation of G protein-coupled receptor signaling pathway / ATF4 activates genes in response to endoplasmic reticulum stress / CXCR chemokine receptor binding / C-C chemokine receptor activity / embryonic digestive tract development / neutrophil activation / C-C chemokine binding / induction of positive chemotaxis / cellular response to fibroblast growth factor stimulus / chemokine-mediated signaling pathway / positive regulation of neutrophil chemotaxis / Chemokine receptors bind chemokines / chemokine activity / dendritic cell chemotaxis / Interleukin-10 signaling / cellular response to interleukin-1 / regulation of cell adhesion / response to endoplasmic reticulum stress / Peptide ligand-binding receptors / neutrophil chemotaxis / secretory granule membrane / G protein-coupled receptor activity / calcium-mediated signaling / response to molecule of bacterial origin / receptor internalization / positive regulation of angiogenesis / chemotaxis / antimicrobial humoral immune response mediated by antimicrobial peptide / heparin binding / cellular response to tumor necrosis factor / positive regulation of cytosolic calcium ion concentration / G alpha (i) signalling events / Senescence-Associated Secretory Phenotype (SASP) / angiogenesis / Interleukin-4 and Interleukin-13 signaling / cellular response to lipopolysaccharide / cell surface receptor signaling pathway / intracellular signal transduction / immune response / inflammatory response / G protein-coupled receptor signaling pathway / negative regulation of cell population proliferation / external side of plasma membrane / negative regulation of gene expression / Neutrophil degranulation / positive regulation of gene expression / signal transduction / extracellular space / extracellular region / plasma membrane Similarity search - Function | ||||||
Biological species | Homo sapiens (human) | ||||||
Method | SOLUTION NMR / simulated annealing | ||||||
Authors | Sepuru, K.M. / Rajarathnam, K. | ||||||
Funding support | United States, 1items
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Citation | Journal: To Be Published Title: Solution NMR CXCL8-CXCR1 N-domain complex structure Authors: Sepuru, K.M. / Rajarathnam, K. | ||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 6xmn.cif.gz | 662.2 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6xmn.ent.gz | 579.9 KB | Display | PDB format |
PDBx/mmJSON format | 6xmn.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/xm/6xmn ftp://data.pdbj.org/pub/pdb/validation_reports/xm/6xmn | HTTPS FTP |
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-Related structure data
Similar structure data | |
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Other databases |
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-Links
-Assembly
Deposited unit |
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1 |
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NMR ensembles |
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-Components
#1: Protein | Mass: 7714.061 Da / Num. of mol.: 1 / Fragment: residues 28-93 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CXCL8, IL8 / Plasmid: pET32 Xa/LIC / Production host: Escherichia coli BL21 (bacteria) / Strain (production host): BL21 / References: UniProt: P10145 |
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#2: Protein/peptide | Mass: 3350.576 Da / Num. of mol.: 1 / Fragment: N-terminal residues 1-29 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: CXCR1, CMKAR1, IL8RA / Plasmid: pET32 Xa/LIC / Production host: Escherichia coli BL21(DE3) (bacteria) / Strain (production host): BL21(DE3) / References: UniProt: P25024 |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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NMR experiment |
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-Sample preparation
Details |
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Sample |
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Sample conditions | Details: CXCL8-CXCR1 complex sample Labeled CXCL8 mixed with unlabeled CXCR1 N-domain Ionic strength: 50 mM / Label: CXCL8-CXCR1_complex_sample_1 / pH: 6.0 / Pressure: 1 bar / Temperature: 303 K |
-NMR measurement
NMR spectrometer |
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-Processing
NMR software |
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Refinement | Method: simulated annealing / Software ordinal: 2 | ||||||||||||||||||
NMR representative | Selection criteria: closest to the average | ||||||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 30 / Conformers submitted total number: 20 |