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. Author manuscript; available in PMC: 2022 Jul 29.
Published in final edited form as: Cell Rep. 2022 Jul 12;40(2):111064. doi: 10.1016/j.celrep.2022.111064

KEY RESOURCES TABLE.

REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies
GFP Polyclonal Antibody Invitrogen CAT# A-11122; RRID:AB_221569
Tiam1 Antibody (C-16) Santa Cruz Biotechnology CAT# sc-872; RRID:AB_2240410
Flag-M2 Sigma-Aldrich CAT# F1804; RRID:AB_262044
Anti-GluN2B Antibody Millipore CAT# 06-600, RRID:AB_310193
Bacterial and virus strains
BL21(DE3) Competent cells New England Biolabs CAT# C2527I
Chemicals, peptides, and recombinant proteins
IPTG GoldBio CAT# I2481C100; CAS# 367-93-1
TCEP GoldBio CAT# TCEP25; CAS# 51805-45-9
Pepstatin Sigma-Aldrich CAT# 11359053001; CAS# 26305-03-3
AEBSF Sigma-Aldrich CAT# 76307; CAS# 30827-99-7
Leupeptin Alfa Aesar CAT# J61188-MC; CAS# 103476-89-7
Benzamidine Sigma-Aldrich CAT# 12072-10G; CAS# 618-39-3
DNase I Sigma-Aldrich CAT# 10104159001; CAS# 9003-98-9
Aprotinin Sigma-Aldrich CAT# 10981532001; CAS# 9087-70-1
Tween 20 Acros Organics CAT# 23336-2500; CAS# 9005-64-5
Triton X-100 Acros Organics CAT# 21568-2500; CAS# 9002-93-1
AMPPNP Tocris CAT# 6086; CAS# 72957-42-7
ATP Sigma-Aldrich CAT# A3377-10G; CAS# 34369-07-8
Syntide-2 LifeTein CAT# 187809
L-Lactate Dehydrogenase Sigma-Aldrich CAT# 10127876001; CAS# 9001-60-9
Pyruvate Kinase Sigma-Aldrich CAT# 10128163001; CAS# 9001-59-6
Phosphoenolpyruvate Alfa Aesar CAT# B20358-14; CAS# 4265-07-0
cOmplete™, EDTA-free Protease Inhibitor Cocktail Sigma-Aldrich CAT# 11873580001
Deposited data
WT kinase in complex with GluN2B and ADP This study PDB:7UJS
WT kinase in complex with GluN2B This study PDB:7UJR
D135N kinase in complex with GluN2B and ATP This study PDB:7UJP
D135N kinase in complex with GluN2B and Hecameg This study PDB:7UPQ
D135N kinase in complex with phosphomimetic GluN2B and ATP This study PDB:7KL1
D135N kinase in complex with phosphomimetic GluN2B and ATP This study PDB:7UJT
D135N kinase in complex with phosphomimetic GluN2B This study PDB:7UIS
D135N kinase in complex with phosphomimetic GluN2B and Hecameg This study PDB:7KL0
D135N kinase in complex with Tiam1 and ATP This study PDB:7UIR
D135N kinase in complex with Tiam1 This study PDB:7UIQ
D135N kinase in complex with densin-180 This study PDB:6X5G
D135N kinase in complex with GluA1 This study PDB:6X5Q
MD simulations This study https://doi.org/10.17632/9m3bg3h5rs.1
Experimental models: Cell lines
HEK293T ATCC CAT# CRL-3216
Recombinant DNA
CaMKII expressin plasmids in pET This study N/A
Λ Phosphatase This study N/A
ULP1 protease This study N/A
CaMKII with a C-terminal FLAG tag in pDEST12.2 (Saneyoshi et al., 2019) N/A
Tiam1-mGFP in pCAGGS (Saneyoshi et al., 2019) N/A
GluN2B in pGW-CMV (Kim et al., 1996) N/A
CaMKIIN-GFP in pEGFP (Chang et al., 2001) N/A
mCherry-Flag in pDEST12.2 (Saneyoshi et al., 2019) N/A
Software and algorithms
GraphPad Prism 6 Dotmatics https://www.graphpad.com/dl/96314/10B92408/
Pymol Schrödinger https://pymol.org/2/
HKL-2000 HKL Research, Inc https://hkl-xray.com/
Coot (Emsley et al., 2010) https://www.ccp4.ac.uk/download/#os=windows
REFMAC5 (Murshudov et al., 1997) https://www.ccp4.ac.uk/download/#os=windows
Phaser (McCoy et al., 2007) https://www.ccp4.ac.uk/download/#os=windows
MicroCal PEAQ-ITC Analysis Software Malvern Panalytical https://www.malvernpanalytical.com/en/support/software-download/
MicroCal PEAQ-DSC Software Malvern Panalytical https://www.malvernpanalytical.com/en/support/software-download/
PDBFixer (Eastman et al., 2013) https://anaconda.org/conda-forge/pdbfixer
Gromacs 2020.2 (Pall et al., 2015) (Huang et al., 2017) https://anaconda.org/conda-forge/pdbfixer
VMD (Humphrey et al., 1996) https://www.ks.uiuc.edu/Development/Download/download.cgi?PackageName=VMD
ProDy (Bakan et al., 2011) http://prody.csb.pitt.edu/downloads/
MDTraj (McGibbon et al., 2015) https://www.mdtraj.org/1.9.8.dev0/index.html