FB2024_03 , released June 25, 2024
Physical Interaction report
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General Information
Interaction Type
physical association
Interacting Genes
ph-p, Scm
FlyBase ID
FBig0000098291
Interaction Network
Interactions Browser links
ph-p network
Scm network
esyN Network Diagram
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Protein
RNA
Selected Interactor(s)
Common Interactor(s)
Reported Interactions
FBrf0098870-2.Y2H
Reference
Peterson et al., 1997
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

fused to LexA DNA-binding domain

Scm 
Scm 
ph-p 

ph

prey

fused to GAL4 activation domain

ph-p 
ph-p 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SPM domain
sufficient binding region
aa 767-877
Scm 
SPM domain
necessary binding region
aa 797-877
ph-p 
SPM domain
sufficient binding region
aa 1297-1589
ph-p 
SPM domain
necessary binding region
aa 1418-1589
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Two-hybrid system: yeast LexA-BD/GAL4-AD

(Peterson et al., 1997)

Source was yeast cell line; bait produced as transgenic fusion protein; prey produced as transgenic fusion protein (prey was previously cloned reagent).

(Peterson et al., 1997)
FBrf0098870-4.PD.A
Reference
Peterson et al., 1997
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

GST tag

Scm 
Scm 
ph-p 

ph

prey

[35]S label

ph-p 
ph-p 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SPM domain
sufficient binding region
aa 797-877
Scm 
SPM domain
necessary binding region
aa 797-877
ph-p 
SPM domain
sufficient binding region
aa 1511-1576
ph-p 
SPM domain
necessary binding region
aa 1417-1576
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Interaction in vitro; bait produced as a recombinant fusion protein in bacterial system; prey produced and labeled by in vitro translation.

(Peterson et al., 1997)
FBrf0110782-10.CH.WB
Reference
Shao et al., 1999
Description
physical association
Assay
Collection
Source/Stage
organism / embryonic stage 1embryonic stage 15blastoderm stagegastrula stageembryonic stage 8embryonic stage 9embryonic stage 6early extended germ band stageembryonic cycle 3extended germ band stageembryonic stage 4embryonic stage 2embryonic cycle 9late extended germ band stageembryonic stage 5embryonic stage 12embryonic stage 11embryonic stage 3embryonic cycle 6embryonic cycle 8embryonic cycle 5embryonic cycle 7embryonic stage 13embryonic cycle 4embryonic stage 14embryonic stage 10embryonic stage 7
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

PH

neutral component

FLAG tag

ph-p 

PH

neutral component

FLAG tag

ph-p 

PH

neutral component

FLAG tag

Scm 

SCM

neutral component
Scm 

SCM

neutral component
Scm 

SCM

neutral component
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was embryonic nuclear extract of transgenic fly line; bait produced from tagged transgenic construct; prey produced from endogenous gene.

(Shao et al., 1999)

ph-p, ph-d, Pc, Psc and Scm copurify as part of a large polycomb repressive (PRC1) complex, estimated to be 2-6 MDa in size (gel filtration).

(Shao et al., 1999)

Affinity purified ph-p containing complexes were fractionated by gel filtration to estimate complex size.

(Shao et al., 1999)
FBrf0110782-4.coIP.WB
Reference
Shao et al., 1999
Description
physical association
Assay
Collection
Source/Stage
organism / embryonic stage 1embryonic stage 15blastoderm stagegastrula stageembryonic stage 8embryonic stage 9embryonic stage 6early extended germ band stageembryonic cycle 3extended germ band stageembryonic stage 4embryonic stage 2embryonic cycle 9late extended germ band stageembryonic stage 5embryonic stage 12embryonic stage 11embryonic stage 3embryonic cycle 6embryonic cycle 8embryonic cycle 5embryonic cycle 7embryonic stage 13embryonic cycle 4embryonic stage 14embryonic stage 10embryonic stage 7
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

PH-p

bait

FLAG tag

Scm 

SCM

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was embryonic nuclear extract of transgenic fly line; bait produced from tagged transgenic construct; prey produced from endogenous gene.

(Shao et al., 1999)

ph-p, ph-d, Pc, Psc and Scm copurify as part of a polycomb repressive (PRC1) complex

(Shao et al., 1999)

Nuclear extract was fractionated on a Biorex 70 column, then used for FLAG-affinity purification of ph-p containing complexes.

(Shao et al., 1999)
FBrf0179383-2.Y2H
Reference
Peterson et al., 2004
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

fused to LexA DNA-binding domain

Scm 
Scm 
Scm 
Scm 
ph-p 

PH

prey

fused to GAL4 activation domain

ph-p 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SPM domain
sufficient binding region
aa 767-877
Scm 
SPM domain
necessary binding region
aa 806-877aa 823-877

\'W1stop\'

\'A18fs\'

Scm 
SPM domain
mutation disrupting interaction
aa 809aa 821aa 829aa 834aa 836aa 847aa 851aa 856aa 860

\'E4K\'

\'S16P\'

\'F24S\', \'F24Y\'

\'I29T\'

\'G31D\' or \'G31S\'

\'M42R\'

\'M46R\'

\'G51R\'

\'K55E\'

Scm 
SPM domain
mutation decreasing interaction
aa 835aa 839aa 853aa 855

\'D30G\'

\'L34S\'

\'L48P\' or \'L48Q\'

\'L50Q\'

ph-p 
SPM domain
sufficient binding region
aa 1297-1589
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was yeast cell line; bait produced as transgenic fusion protein; prey produced as transgenic fusion protein (prey was previously cloned reagent).

(Peterson et al., 2004)

Two-hybrid system: yeast LexA-BD/GAL4-AD

(Peterson et al., 2004)

Scm was mutagenized in vitro and screened for mutations that disrupt binding to Scm or ph-p.

(Peterson et al., 2004)
FBrf0179383-4.PD.A
Reference
Peterson et al., 2004
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

PH

bait

GST tag

ph-p 
Scm 

SCM

prey

[35]S label

Scm 
Scm 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
ph-p 
SPM domain
sufficient binding region
aa 1297-1589
Scm 
SPM domain
sufficient binding region
aa 767-877
Scm 
SPM domain
mutation disrupting interaction
aa 836aa 851aa 860

\'G31D\'

\'M46R\'

\'K55E\'

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Interaction in vitro; bait produced as a recombinant fusion protein in bacterial system; prey produced and labeled by in vitro translation.

(Peterson et al., 2004)
FBrf0179383-5.coIP.WB
Reference
Peterson et al., 2004
Description
physical association
Assay
Collection
Source/Stage
organism / embryonic stage 1embryonic stage 17blastoderm stagegastrula stageembryonic stage 8dorsal closure stageembryonic stage 9embryonic stage 6early extended germ band stageembryonic cycle 3extended germ band stageembryonic stage 4embryonic cycle 9embryonic stage 2late extended germ band stageembryonic stage 5embryonic stage 11embryonic stage 3embryonic stage 12embryonic stage 15embryonic cycle 6embryonic cycle 5embryonic cycle 8embryonic cycle 7embryonic stage 13embryonic cycle 4embryonic stage 14embryonic stage 10embryonic stage 7embryonic stage 16
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

PH

bait
Scm 

SCM

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was embryos of wild-type fly line; bait produced from endogenous gene; prey produced from endogenous gene.

(Peterson et al., 2004)

Only small proportion of Scm coimmunoprecipitates with ph-p. This interaction was not observed in the reciprocal immunoprecipitation (with Scm as bait and ph-p as prey). In gel filtration fractionation, ph-p and Scm exist mostly in non-overlapping pools.

(Peterson et al., 2004)
FBrf0179383-9.coIP.MW
Reference
Peterson et al., 2004
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

PH

bait

FLAG tag

Scm 

SCM

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Scm can efficiently associate with the PCC complex (ph-p, Pc, Sce and Psc).

(Peterson et al., 2004)

Source was cell extract of baculovirus-infected insect cell line; bait produced from transfected construct; prey produced from transfected construct.

(Peterson et al., 2004)
FBrf0187789-1.XC
Reference
Kim et al., 2005
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

neutral component
Scm 

Scm

neutral component
Scm 
Scm 

Scm

neutral component
Scm 
ph-p 

Ph

neutral component
ph-p 
ph-p 

Ph

neutral component
ph-p 

Ph

neutral component
ph-p 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SAM domain
sufficient binding region
aa 795-870

coordinates relative to Scm-PA

ph-p 
SAM domain
sufficient binding region
aa 1502-1577

coordinates relative to ph-p-PA

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Interaction in vitro; proteins produced as a recombinant fusion proteins in bacterial system.

(Kim et al., 2005)
FBrf0187789-2.PD.MW
Reference
Kim et al., 2005
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

Ph

bait

GST tag

ph-p 
Scm 

Scm

prey

His tag

Scm 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SAM domain
sufficient binding region
aa 795-870

coordinates relative to Scm-PA

ph-p 
SAM domain
sufficient binding region
aa 1502-1577

coordinates relative to ph-p-PA

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Interaction in vitro; bait produced as a recombinant fusion protein in bacterial system; prey produced as a recombinant fusion protein in bacterial system.

(Kim et al., 2005)
FBrf0187789-3.SPR
Reference
Kim et al., 2005
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

Ph

bait
ph-p 
Scm 

Scm

prey
Scm 
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
SAM domain
sufficient binding region
aa 795-870

coordinates relative to Scm-PA

ph-p 
SAM domain
sufficient binding region
aa 1502-1577

coordinates relative to ph-p-PA

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Interaction in vitro; bait produced as a recombinant fusion protein in bacterial system; prey produced as a recombinant fusion protein in bacterial system.

(Kim et al., 2005)
FBrf0208372-7.coIP.WB
Reference
Grimm et al., 2009
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

FLAG tag

Scm 
ph-p 

Ph

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Scm 
N-terminal region
sufficient binding region
aa 1-877
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was cell extract of baculovirus-infected Sf9 insect cell line; bait produced from transfected construct; prey produced from transfected construct.

(Grimm et al., 2009)

Scm interacts with Sfmbt, and weakly with ph-p, but not with pho.

(Grimm et al., 2009)
FBrf0216282-4.AF.MW
Reference
Grau et al., 2010
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

Ph

bait

FLAG tag

ph-p 
Scm 

Scm

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
ph-p 
SAM domain
necessary binding region
unspecified

deletion of SAM domain

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was nuclear extract of Sf9 cell line; protein produced from transfected constructs.

(Grau et al., 2010)
FBrf0228678-28.TAP.MS
Reference
Kang et al., 2015
Description
physical association
Assay
Collection
Source/Stage
organism / embryonic stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

BioTAP tag

ph-p 

ph-p

prey

42, 20 peptide counts

Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was embryos of transgenic fly line; bait produced from tagged transgenic construct; prey produced from endogenous gene.

(Kang et al., 2015)
FBrf0228678-50.TAP.MS
Reference
Kang et al., 2015
Description
physical association
Assay
Collection
Source/Stage
Cell line used
S2-unspecified
Participants
Corresponds to
Reported as
Role
Note
Scm 

Scm

bait

BioTAP tag

ph-p 

ph-p

prey

56 peptide counts

Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was cell extract of S2 cell line; bait produced from transfected construct; prey produced from endogenous gene.

(Kang et al., 2015)
FBrf0232245-16.coIP.MW
Reference
Frey et al., 2016
Description
physical association
Assay
Collection
Source/Stage
Cell line used
Participants
Corresponds to
Reported as
Role
Note
ph-p 

Ph-p

bait

FLAG tag

ph-p 
Scm 

Scm

prey
Experimental entities
Corresponds to
Identifier
Reported
Role
Note
Subregions with role in interaction
Corresponds to
Description
Role
Coordinates
Note
ph-p 
C-terminal region
sufficient binding region
aa 1298-1589

coordinates relative to ph-p-PA

Isoform-specific participants
Corresponds to
Description
Role
Note
Comments concerning this interaction

Source was cell extract of baculovirus-infected Sf9 cell line; bait produced from transfected construct; prey produced from transfected construct.

(Frey et al., 2016)
External Crossreferences and Linkouts ( 1 )
Linkouts
MIST - An integrated Molecular Interaction Database
References (8)