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- PDB-2mlq: Human CCR2 Membrane-Proximal C-Terminal Region (PRO-C) in a froun... -

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Basic information

Entry
Database: PDB / ID: 2mlq
TitleHuman CCR2 Membrane-Proximal C-Terminal Region (PRO-C) in a frount bound form
ComponentsMCP-1 receptor
KeywordsSIGNALING PROTEIN / CCR2 / PRO-C / FROUNT
Function / homology
Function and homology information


T-helper 17 cell chemotaxis / chemokine (C-C motif) ligand 2 binding / chemokine (C-C motif) ligand 12 binding / negative regulation of eosinophil degranulation / positive regulation of immune complex clearance by monocytes and macrophages / positive regulation of CD8-positive, alpha-beta T cell extravasation / positive regulation of astrocyte chemotaxis / leukocyte adhesion to vascular endothelial cell / chemokine (C-C motif) ligand 7 binding / positive regulation of thymocyte migration ...T-helper 17 cell chemotaxis / chemokine (C-C motif) ligand 2 binding / chemokine (C-C motif) ligand 12 binding / negative regulation of eosinophil degranulation / positive regulation of immune complex clearance by monocytes and macrophages / positive regulation of CD8-positive, alpha-beta T cell extravasation / positive regulation of astrocyte chemotaxis / leukocyte adhesion to vascular endothelial cell / chemokine (C-C motif) ligand 7 binding / positive regulation of thymocyte migration / positive regulation of hematopoietic stem cell migration / monocyte extravasation / CCR2 chemokine receptor binding / negative regulation of type 2 immune response / regulation of vascular endothelial growth factor production / positive regulation of NMDA glutamate receptor activity / Beta defensins / positive regulation of monocyte extravasation / macrophage migration / regulation of T cell cytokine production / regulation of macrophage migration / neutrophil clearance / positive regulation of leukocyte tethering or rolling / chemokine receptor activity / positive regulation of T-helper 1 type immune response / inflammatory response to wounding / positive regulation of T cell chemotaxis / positive regulation of alpha-beta T cell proliferation / C-C chemokine receptor activity / C-C chemokine binding / negative regulation of adenylate cyclase activity / cellular homeostasis / chemokine-mediated signaling pathway / positive regulation of monocyte chemotaxis / Chemokine receptors bind chemokines / dendritic cell chemotaxis / regulation of T cell differentiation / Interleukin-10 signaling / monocyte chemotaxis / cell surface receptor signaling pathway via JAK-STAT / humoral immune response / hemopoiesis / blood vessel remodeling / cellular defense response / homeostasis of number of cells within a tissue / sensory perception of pain / positive regulation of interleukin-2 production / cell chemotaxis / negative regulation of angiogenesis / positive regulation of synaptic transmission, glutamatergic / calcium-mediated signaling / intracellular calcium ion homeostasis / fibrillar center / positive regulation of inflammatory response / response to wounding / cytokine-mediated signaling pathway / chemotaxis / positive regulation of T cell activation / positive regulation of type II interferon production / positive regulation of tumor necrosis factor production / positive regulation of cold-induced thermogenesis / positive regulation of cytosolic calcium ion concentration / G alpha (i) signalling events / regulation of inflammatory response / perikaryon / immune response / inflammatory response / external side of plasma membrane / dendrite / neuronal cell body / perinuclear region of cytoplasm / membrane / identical protein binding / plasma membrane / cytosol / cytoplasm
Similarity search - Function
CC chemokine receptor 2 / Chemokine receptor family / Serpentine type 7TM GPCR chemoreceptor Srsx / G-protein coupled receptors family 1 signature. / G protein-coupled receptor, rhodopsin-like / GPCR, rhodopsin-like, 7TM / G-protein coupled receptors family 1 profile. / 7 transmembrane receptor (rhodopsin family)
Similarity search - Domain/homology
C-C chemokine receptor type 2 / C-C chemokine receptor type 2
Similarity search - Component
Biological speciesHomo sapiens (human)
MethodSOLUTION NMR
Model detailslowest energy, model1
AuthorsEsaki, K. / Yoshinaga, S. / Tsuji, T. / Toda, E. / Terashima, Y. / Saitoh, T. / Kohda, D. / Kohno, T. / Osawa, M. / Ueda, T. ...Esaki, K. / Yoshinaga, S. / Tsuji, T. / Toda, E. / Terashima, Y. / Saitoh, T. / Kohda, D. / Kohno, T. / Osawa, M. / Ueda, T. / Shimada, I. / Matsushima, K. / Terasawa, H.
CitationJournal: Febs J. / Year: 2014
Title: Structural basis for the binding of the membrane-proximal C-terminal region of chemokine receptor CCR2 with the cytosolic regulator FROUNT.
Authors: Esaki, K. / Yoshinaga, S. / Tsuji, T. / Toda, E. / Terashima, Y. / Saitoh, T. / Kohda, D. / Kohno, T. / Osawa, M. / Ueda, T. / Shimada, I. / Matsushima, K. / Terasawa, H.
History
DepositionMar 4, 2014Deposition site: BMRB / Processing site: PDBJ
Revision 1.0Oct 8, 2014Provider: repository / Type: Initial release
Revision 1.1Oct 29, 2014Group: Database references
Revision 1.2Aug 24, 2022Group: Database references / Category: citation / database_2
Item: _citation.journal_volume / _citation.page_first ..._citation.journal_volume / _citation.page_first / _citation.page_last / _citation.title / _database_2.pdbx_DOI / _database_2.pdbx_database_accession
Revision 1.3Jun 14, 2023Group: Other / Category: pdbx_database_status / Item: _pdbx_database_status.status_code_nmr_data

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: MCP-1 receptor


Theoretical massNumber of molelcules
Total (without water)2,1341
Polymers2,1341
Non-polymers00
Water0
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
NMR ensembles
DataCriteria
Number of conformers (submitted / calculated)20 / 100target function
RepresentativeModel #1lowest energy

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Components

#1: Protein/peptide MCP-1 receptor / CCR2 / CHEMOKINE_(C-C_MOTIF)_RECEPTOR_2


Mass: 2133.540 Da / Num. of mol.: 1 / Fragment: C-Terminal region, UNP Residues 90-105
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) Homo sapiens (human) / Gene: CCR2 / Production host: Escherichia Coli (E. coli) / References: UniProt: O95950, UniProt: P41597*PLUS

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Experimental details

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Experiment

ExperimentMethod: SOLUTION NMR
NMR experiment
Conditions-IDExperiment-IDSolution-IDType
1113D 1H-15N NOESY
1223D 1H-13C NOESY
1333D CBCA(CO)NH
1433D HN(CA)CB
1533D HBHA(CO)NH
1643D (H)CCH-TOCSY
1752D 1H-15N HSQC
1842D 1H-13C HSQC

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Sample preparation

Details
Solution-IDContentsSolvent system
1800 uM [U-100% 15N] CCR2_Pro-C-1, 20 mM sodium phosphate-2, 50 mM sodium chloride-3, 8 uM FROUNT-4, 5 % [U-100% 2H] D2O-5, 95 % H2O-695% H2O/5% D2O
2800 uM [U-100% 13C; U-100% 15N] CCR2_Pro-C-7, 20 mM sodium phosphate-8, 50 mM sodium chloride-9, 8 uM FROUNT-10, 100 % [U-100% 2H] D2O-11100% D2O
3200 uM [U-100% 13C; U-100% 15N] CCR2_Pro-C-12, 20 mM sodium phosphate-13, 50 mM sodium chloride-14, 5 % [U-100% 2H] D2O-15, 95 % H2O-1695% H2O/5% D2O
4200 uM [U-100% 13C; U-100% 15N] CCR2_Pro-C-17, 20 mM sodium phosphate-18, 50 mM sodium chloride-19, 100 % [U-100% 2H] D2O-20100% D2O
5200 uM [U-100% 15N] CCR2_Pro-C-21, 20 mM sodium phosphate-22, 50 mM sodium chloride-23, 5 % [U-100% 2H] D2O-24, 95 % H2O-2595% H2O/5% D2O
Sample
Conc. (mg/ml)ComponentIsotopic labelingSolution-ID
800 uMCCR2_Pro-C-1[U-100% 15N]1
20 mMsodium phosphate-21
50 mMsodium chloride-31
8 uMFROUNT-41
5 %D2O-5[U-100% 2H]1
95 %H2O-61
800 uMCCR2_Pro-C-7[U-100% 13C; U-100% 15N]2
20 mMsodium phosphate-82
50 mMsodium chloride-92
8 uMFROUNT-102
100 %D2O-11[U-100% 2H]2
200 uMCCR2_Pro-C-12[U-100% 13C; U-100% 15N]3
20 mMsodium phosphate-133
50 mMsodium chloride-143
5 %D2O-15[U-100% 2H]3
95 %H2O-163
200 uMCCR2_Pro-C-17[U-100% 13C; U-100% 15N]4
20 mMsodium phosphate-184
50 mMsodium chloride-194
100 %D2O-20[U-100% 2H]4
200 uMCCR2_Pro-C-21[U-100% 15N]5
20 mMsodium phosphate-225
50 mMsodium chloride-235
5 %D2O-24[U-100% 2H]5
95 %H2O-255
Sample conditionspH: 6.5 / Pressure: AMBIENT / Temperature: 283 K

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NMR measurement

NMR spectrometerType: BRUKER AVANCE III / Manufacturer: Bruker / Model: AVANCE III / Field strength: 600 MHz

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Processing

NMR softwareName: CYANA / Developer: GUNTERT, MUMENTHALER / Classification: refinement
NMR representativeSelection criteria: lowest energy
NMR ensembleConformer selection criteria: target function / Conformers calculated total number: 100 / Conformers submitted total number: 20 / Representative conformer: 1

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