Table 1.

Summary of BAF protein partners

BAF binding partners	Functions	Assays to analyze interaction with BAF1,2	References
LEM-domain proteins
Emerin	Mitosis, integral component of nuclear inner membrane	Blot overlay assay, co-IP, microtiter binding assay, FRET, NMR, co-localization by IF	[11,14,21,38,40,67]
LAP2α	Mitosis, transcriptional regulator	Native gel shift assay, NMR, in vitro binding assay, co-IP, co-localization by IF	[13,15,77]
LAP2β	Mitosis, integral component of nuclear inner membrane, transcriptional repressor	Y2H, native gel shift assay, in vitro binding assay, NMR	[9,13,15]
MAN1	Integral component of nuclear inner membrane	Microtiter binding assay	[10]
Lamin A	Mitosis, structural component of the nuclear envelope, signaling	Microtiter binding assay, FRET, AP-MS**	[40,67,68]
Prelamin A	Precursor form of lamin A	Co-IP, co-localization by IF	[28,32]
Progerin	Truncated form of farnesylated prelamin A	Co-IP, co-localization by IF	[28]
Lamin B	Structural component of the nuclear envelope	Subcellular co-fractionation	[78]
LEM2	Integral component of nuclear inner membrane	Co-localization by IF	[79]
Ankle1/Lem3	DNA damage response	In vitro pulldown assay	[73]
Nemp1	Inner membrane nuclear protein in Xenopus, neural development	GST-pulldown assay, co-localization by IF	[80]
Transcriptional regulators
Crx *	Homeodomain transcription activator, organ morphogenesis	Y2H, in vitro pulldown, co-IP, IF, NMR	[65,66]
LAP2ζ	Regulator of LAP2β-mediated transcriptional repressor	Co-IP, co-localization by IF	[27]
Requiem	Transcription factor in myeloid cells, apoptosis	Co-IP, AP-MS	[68]
Sox2	Embryonic stem cell differentiation	AP-MS (MudPIT)	[64]
Histones and histone regulators
H1.1	Nucleosome	Blot overlay assay, microtiter binding assay, GST-pulldown	[70]
H3	Nucleosome	Blot overlay assay, microtiter binding assay, GST-pulldown, AP-MS	[68,70]
H4	Nucleosome	In vitro pulldown assay	[69]
RBBP4	Histone chaperone	Co-IP, AP-MS	[68]
SET/I2PP2A	Mitosis, nucleosome assembly, gene expression	Co-IP, AP-MS	[68,69]
G9A	Histone methylation	Co-IP, AP-MS	[69]
DNA damage repair proteins
PARP1	DNA damage response, gene expression	Co-IP, AP-MS	[68]
DDB1, DDB2	DNA damage response, protein degradation	Co-IP, AP-MS	[68]
CUL4	Protein ubiquitination	Co-IP, AP-MS	[68]
Kinases
VRK1	Mitosis, histone phosphorylation, protein phosphorylation	In vitro kinase assay	[23,24,39,46]
VRK2	Protein phosphorylation, signaling	In vitro kinase assay	[23,46]
B1	Vaccinia kinase required for viral DNA replication and gene expression	In vitro kinase assay	[23,29]
Phosphatases
PP2A	Mitosis, protein dephosphorylation, gene expression	In vitro phosphatase assay	[35]
PP4	Protein dephosphorylation, DNA damage response	siRNA depletion of PP4	[36]
Others
BAF-L	Potential regulator of BAF DNA binding	In vitro pulldown assay	[8]

^*Interaction with BAF is mediated by DNA

¹Bold letters indicate assays performed using purified proteins suggesting direct interaction with BAF

²Underlined letters indicate assays performed using sequence common to all isoforms of LAP2

Abbreviations: Co-IP (co-immunoprecipitation), Y2H (yeast two hybrid), IF (immunofluorescence), NMR (nuclear magnetic resonance), FRET (fluorescence resonance energy transfer), AP-MS (affinity purification followed by mass spectrometry).