PIPs: Human Protein-Protein Interaction Prediction

Evidence of Interaction Between RFC4 and CDC6

The interaction score between RFC4 and CDC6 is 28.60.

This page provides the details about the evidence that was used to calculate the interaction Score between the two proteins

The Scores that are listed with each module are based on the interaction score where that module provides the only source of evidence. The final Score is the integration of all the sources of evidence.

Feature

Evidence

Score (?)

Gene Expression

Pearson's Correlation between RFC4 and CDC6 = 0.84

The original expression data was collated from the NCBI GEO database. For further information about this dataset please refer to the NCBI GEO dataset GDS596.

0.027

Orthology

Organism	RFC4 Orthologue		CDC6 Orthologue		Experiment
Organism	Accession	Inparalog Score	Accession	Inparalog Score	Experiment
bakers yeast	YJR068W	1	YJL194W	1
worm	P53016	1	P91155	1
fly	Q9VX15	1	Q9VSM9	1

The Inparalog Score is calculated by InParanoid

The experiment type Other refers to techniques other than Y2H, MS, Immunoprecipitation, SurfacePlasmonResonance, XrayDiffraction, Xlinking, CompetitionBinding, Immunofluorescence, GelRetardationAssay, AffinityChromatography, InVitroBinding, InVitro, InVivo, FarWestern, pullDown, AffinityCaptureMS, EpistaticMiniArrayProfile, AffinityCaptureWestern, BiochemicalActivity, CoCrystalStructure, FRET, ReconstitutedComplex, CoLocalization, CoPurification or CoFractionation.

2.23E-3

Domains

Domains present in RFC4 and CDC6:

Domains in RFC4

Domains in CDC6

IPR003593	AAA ATPase
IPR003959	AAA ATPase, central region
IPR008921	DNA polymerase III clamp loader subunit, C-terminal
IPR000862	RFC
IPR013748	Replication factor C

IPR003593	AAA ATPase
IPR003959	AAA ATPase, central region
IPR011991	Wing_hlx_DNA_bd.

The Chi square scores for co-occurrence of domains that are present in RFC4 and CDC6 are listed below.

Domain 1		Domain 2		Chi Square
IPR000862	RFC	IPR003959	AAA ATPase, central region	182.174
IPR003959	AAA ATPase, central region	IPR003959	AAA ATPase, central region	167.459
IPR003593	AAA ATPase	IPR003959	AAA ATPase, central region	133.351
IPR000862	RFC	IPR003593	AAA ATPase	128.851
IPR003593	AAA ATPase	IPR003593	AAA ATPase	89.0695
IPR003593	AAA ATPase	IPR011991	Wing_hlx_DNA_bd.	0.00778109

The background colour of the table refers to:

Blue Domain is only present in RFC4
Yellow Domain is only present in CDC6
Green Domain is present in both RFC4 and CDC6

0.021

Post-translational Modifications

Protein: RFC4

PTM	Residue	Reference

Protein: CDC6

PTM	Residue	Reference
Phosphorylation	54	PubMed, HPRD
Phosphorylation	74	PubMed, HPRD
Phosphorylation	106	PubMed, HPRD

Localisation

Protein: RFC4

Localisation	Reference
Nucleoplasm	HPRD

Protein: CDC6

Localisation	Reference
Nucleus	HPRD
Cytoplasm	HPRD

Transitive Score

The common interactors between RFC4 and CDC6 that are considered by the Transitive module are listed below.

The Scores listed are the values used by the transitive module to calculate the final interaction Score between RFC4 andCDC6. The values listed are therefore not the final Score value for the listed interactions.

With a Score value ≥0.025 , RFC4 has 123 interactors and CDC6 has 931 interactors of which there are 80 common interactors.

Common Interactor	Name of Common Interactor	Score for RFC4-Interactor (?)	Score for CDC6-Interactor (?)
RFC3	RFC3: Replication factor C subunit 3	1.05E4	0.207
RFC5	RFC5: Replication factor C subunit 5	691.00	0.207
PCNA	PCNA: Proliferating cell nuclear antigen	54.70	1.62
RAD17	RAD17, R24L: Cell cycle checkpoint protein RAD17	4.78	0.046
IMPDH2	IMPDH2, IMPD2: Inosine-5'-monophosphate dehydrogenase 2	3.89	0.066
MCM6	MCM6: DNA replication licensing factor MCM6	0.620	0.263
KIAA0788	ASCC3L1, HELIC2, KIAA0788: U5 small nuclear ribonucleoprotein 200 kDa helicase	0.612	0.063
ABCE1	ABCE1, RLI, OK/SW-cl.40, RNASEL1, RNASELI, RNS4I: ATP-binding cassette sub-famil	0.263	0.123
MCM4	MCM4, CDC21: DNA replication licensing factor MCM4	0.207	1.62
MCM5	MCM5, CDC46: DNA replication licensing factor MCM5	0.207	32.60
MCM7	MCM7, CDC47, MCM2: DNA replication licensing factor MCM7	0.207	69.60
ORC6L	ORC6L: Origin recognition complex subunit 6	0.207	0.123
EIF2S1	EIF2S1, EIF2A: Eukaryotic translation initiation factor 2 subunit 1	0.207	0.461
MCM2	MCM2, BM28, CCNL1, CDCL1, KIAA0030: DNA replication licensing factor MCM2	0.207	431.00
MCM3	MCM3: DNA replication licensing factor MCM3	0.207	1.62
TAF9	AK6, AD-004, CGI-137: Adenylate kinase isoenzyme 6	0.137	0.065
KARS	KARS, KIAA0070: Lysyl-tRNA synthetase	0.137	0.053
RUVBL1	RUVBL1, NMP238, TIP49, TIP49A: RuvB-like 1	0.123	0.059
TRIP13	TRIP13: Thyroid receptor-interacting protein 13	0.123	0.503
YBX1	YBX1, NSEP1, YB1: Nuclease sensitive element-binding protein 1	0.123	0.461
ATAD2	ATAD2, L16, PRO2000: ATPase family AAA domain-containing protein 2	0.123	0.503
SSBP1	SSBP1, SSBP: Single-stranded DNA-binding protein, mitochondrial precursor	0.117	0.0331
DHX15	DHX15, DBP1, DDX15: Putative pre-mRNA-splicing factor ATP-dependent RNA helicase	0.108	0.083
POLR2H	POLR2H: DNA-directed RNA polymerases I, II, and III subunit RPABC3	0.0968	0.156
YARS	YARS: Tyrosyl-tRNA synthetase, cytoplasmic	0.0968	0.461
ORC1L	ORC1L, ORC1, PARC1: Origin recognition complex subunit 1	0.0968	0.763
RPA1	RPA1, REPA1, RPA70: Replication protein A 70 kDa DNA-binding subunit	0.0968	0.074
BRCA2	BRCA2, FACD, FANCD1: Breast cancer type 2 susceptibility protein	0.083	0.515
KIAA0101	PAF, KIAA0101, L5, NS5ATP9: PCNA-associated factor	0.082	0.027
SMC4L1	N/A	0.082	0.027
PSMC1	PSMC1: 26S protease regulatory subunit 4	0.074	0.245
SCYE1	SCYE1, EMAP2: Multisynthetase complex auxiliary component p43 [Contains: Endothe	0.074	0.044
PSMC6	PSMC6, SUG2: 26S protease regulatory subunit S10B	0.074	0.035
ATAD3A	ATAD3A: ATPase family AAA domain-containing protein 3A	0.074	0.059
DARS	DARS, PIG40: Aspartyl-tRNA synthetase, cytoplasmic	0.074	0.047
PSMC3	PSMC3, TBP1: 26S protease regulatory subunit 6A	0.074	0.059
PSMC2	PSMC2, MSS1: 26S protease regulatory subunit 7	0.074	65.00
RUVBL2	RUVBL2, TIP48, CGI-46, TIP49B: RuvB-like 2	0.074	0.035
FXR1	FXR1: Fragile X mental retardation syndrome-related protein 1	0.074	0.245
SRP54	SRP54: Signal recognition particle 54 kDa protein	0.074	0.035
CKS2	CKS2: Cyclin-dependent kinases regulatory subunit 2	0.0739	3.05
FEN1	FEN1, RAD2: Flap endonuclease 1	0.0739	0.0479
EIF5AP1	EIF5A: Eukaryotic translation initiation factor 5A-1	0.067	0.416
MDN1	MDN1, KIAA0301: Midasin	0.060	0.275
NARS	NARS, ASNS: Asparaginyl-tRNA synthetase, cytoplasmic	0.060	0.029
EIF1AX	EIF1AX, EIF1A, EIF4C: Eukaryotic translation initiation factor 1A, X-chromosomal	0.060	0.044
EXOSC2	EXOSC2, RRP4: Exosome complex exonuclease RRP4	0.060	0.275
PRKDC	PRKDC, HYRC, HYRC1: DNA-dependent protein kinase catalytic subunit	0.059	0.430
EIF2B5	EIF2B5, EIF2BE: Translation initiation factor eIF-2B subunit epsilon	0.059	0.372
ORC2L	ORC2L, ORC2: Origin recognition complex subunit 2	0.059	19.70
CNAP1	NCAPD2, CAPD2, CNAP1, KIAA0159: Condensin complex subunit 1	0.053	0.081
CSE1L	CSE1L, CAS, XPO2: Exportin-2	0.053	0.0525
ORC3L	ORC3L, LATHEO: Origin recognition complex subunit 3	0.053	0.050
CCNB2	CCNB2: G2/mitotic-specific cyclin-B2	0.051	69.60
CCNA2	CCNA2, CCN1, CCNA: Cyclin-A2	0.051	0.263
CCNB1	Cyclin B1	0.051	86.60
XRCC3	XRCC3: DNA-repair protein XRCC3	0.047	0.074
POLR2G	POLR2G: DNA-directed RNA polymerase II subunit RPB7	0.047	0.036
ASCC3	ASCC3, HELIC1: Activating signal cointegrator 1 complex subunit 3	0.047	0.044
BCS1L	BCS1L, BCS1: Mitochondrial chaperone BCS1	0.044	0.029
EIF1AY	EIF1AY: Eukaryotic translation initiation factor 1A, Y-chromosomal	0.044	0.044
GCLC	GCLC, GLCL, GLCLC: Glutamate--cysteine ligase catalytic subunit	0.044	0.036
VCP	VCP: Transitional endoplasmic reticulum ATPase	0.044	0.181
BARD1	BARD1: BRCA1-associated RING domain protein 1	0.042	0.385
SRPR	SRPR: Uncharacterized protein SRPR	0.041	0.126
XAB1	XAB1, MBDIN, HUSSY-23: XPA-binding protein 1	0.0331	0.027
RFC1	RFC1, RFC140: Replication factor C subunit 1	0.0288	0.051
DBF4	DBF4, ASK: Protein DBF4 homolog	0.027	0.025
C18orf56	N/A	0.027	0.027
CDCA8	CDCA8, PESCRG3: Borealin	0.027	0.027
TPX2	TPX2, C20orf1, C20orf2, DIL2, HCA519: Targeting protein for Xklp2	0.027	0.053
HMMR	HMMR: Hyaluronan-mediated motility receptor	0.027	0.027
MCM10	N/A	0.027	0.027
ZWINT	N/A	0.027	0.027
GMNN	GMNN: Geminin	0.027	0.053
RAD51AP1	N/A	0.027	0.027
PRSS15	LONP1, PRSS15: Lon protease homolog, mitochondrial precursor	0.027	0.027
DNAH11	N/A	0.027	0.027
RPA3	RPA3, REPA3, RPA14: Replication protein A 14 kDa subunit	0.027	0.027
CCNF	CCNF: G2/mitotic-specific cyclin-F	0.027	0.137

0.347

Total Score

28.60