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Evidence of Interaction Between RFC4 and YBX1

The interaction score between RFC4 and YBX1 is 17.00.

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.

FeatureEvidenceScore (?)
Gene Expression

Pearson's Correlation between RFC4 and YBX1 = 0.79

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.

 0.013
Orthology
OrganismRFC4 OrthologueYBX1 OrthologueExperiment
AccessionInparalog ScoreAccessionInparalog Score
worm P53016 1 O62213 0.254
fly Q9VX15 1 O46173 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 YBX1:
Domains in RFC4Domains in YBX1
IPR003593 AAA ATPase
IPR003959 AAA ATPase, central region
IPR008921 DNA polymerase III clamp loader subunit, C-terminal
IPR000862 RFC
IPR013748 Replication factor C
IPR008994 Nucleic acid-binding OB-fold
IPR002059 Cold-shock DNA-binding domain
IPR011129 Cold shock protein
IPR012340 OB_NA_bd_sub.

The Chi square scores for co-occurrence of domains that are present in RFC4 and YBX1 are listed below.

Domain 1Domain 2Chi Square
IPR003593 AAA ATPase IPR008994 Nucleic acid-binding OB-fold 36.1462

The background colour of the table refers to:

  • Blue Domain is only present in RFC4
  • Yellow Domain is only present in YBX1
  • Green Domain is present in both RFC4 and YBX1

 0.027
Post-translational Modifications

Protein: RFC4

PTMResidueReference

Protein: YBX1

PTMResidueReference
Phosphotyrosine 162 HPRD
Localisation

Protein: RFC4

LocalisationReference
Nucleoplasm HPRD

Protein: YBX1

LocalisationReference
Nucleus HPRD
Cytoplasm HPRD
Transitive Score

The common interactors between RFC4 and YBX1 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 andYBX1. 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 YBX1 has 1093 interactors of which there are 78 common interactors.

Common InteractorName of Common InteractorScore for RFC4-Interactor (?)Score for YBX1-Interactor (?)
RFC3 RFC3: Replication factor C subunit 3 1.05E4 0.123
RFC5 RFC5: Replication factor C subunit 5 691.00 0.123
PCNA PCNA: Proliferating cell nuclear antigen 54.70 0.129
IMPDH2 IMPDH2, IMPD2: Inosine-5'-monophosphate dehydrogenase 2 3.89 0.078
MCM6 MCM6: DNA replication licensing factor MCM6 0.620 0.123
KIAA0788 ASCC3L1, HELIC2, KIAA0788: U5 small nuclear ribonucleoprotein 200 kDa helicase 0.612 0.233
GART GART, PGFT, PRGS: Trifunctional purine biosynthetic protein adenosine-3 [Include 0.354 0.025
CHTF18 RUVBL, CHTF18: Protein CTF18 homolog. 0.354 0.025
NTHL1 NTHL1, NTH1, OCTS3: Endonuclease III-like protein 1 0.298 0.036
ABCE1 ABCE1, RLI, OK/SW-cl.40, RNASEL1, RNASELI, RNS4I: ATP-binding cassette sub-famil 0.263 0.123
LAMR1 RPSA, LAMBR, LAMR1: 40S ribosomal protein SA 0.221 0.129
ORC6L ORC6L: Origin recognition complex subunit 6 0.207 0.074
EIF2S1 EIF2S1, EIF2A: Eukaryotic translation initiation factor 2 subunit 1 0.207 0.763
MCM2 MCM2, BM28, CCNL1, CDCL1, KIAA0030: DNA replication licensing factor MCM2 0.207 0.461
MCM3 MCM3: DNA replication licensing factor MCM3 0.207 0.763
MCM4 MCM4, CDC21: DNA replication licensing factor MCM4 0.207 0.461
CDC6 CDC6, CDC18L: Cell division control protein 6 homolog 0.207 0.461
MCM5 MCM5, CDC46: DNA replication licensing factor MCM5 0.207 0.074
MCM7 MCM7, CDC47, MCM2: DNA replication licensing factor MCM7 0.207 0.123
TAF9 AK6, AD-004, CGI-137: Adenylate kinase isoenzyme 6 0.137 0.0255
KARS KARS, KIAA0070: Lysyl-tRNA synthetase 0.137 0.293
ATAD2 ATAD2, L16, PRO2000: ATPase family AAA domain-containing protein 2 0.123 0.763
RUVBL1 RUVBL1, NMP238, TIP49, TIP49A: RuvB-like 1 0.123 0.074
TRIP13 TRIP13: Thyroid receptor-interacting protein 13 0.123 0.763
SSBP1 SSBP1, SSBP: Single-stranded DNA-binding protein, mitochondrial precursor 0.117 0.055
DHX15 DHX15, DBP1, DDX15: Putative pre-mRNA-splicing factor ATP-dependent RNA helicase 0.108 0.137
RPA1 RPA1, REPA1, RPA70: Replication protein A 70 kDa DNA-binding subunit 0.0968 0.123
POLR2H POLR2H: DNA-directed RNA polymerases I, II, and III subunit RPABC3 0.0968 0.257
YARS YARS: Tyrosyl-tRNA synthetase, cytoplasmic 0.0968 0.156
ORC1L ORC1L, ORC1, PARC1: Origin recognition complex subunit 1 0.0968 0.461
BRCA2 BRCA2, FACD, FANCD1: Breast cancer type 2 susceptibility protein 0.083 0.307
PLK4 PLK4, SAK, STK18: Serine/threonine-protein kinase PLK4 0.081 0.038
PSMC2 PSMC2, MSS1: 26S protease regulatory subunit 7 0.074 0.156
RUVBL2 RUVBL2, TIP48, CGI-46, TIP49B: RuvB-like 2 0.074 0.123
FXR1 FXR1: Fragile X mental retardation syndrome-related protein 1 0.074 0.763
SRP54 SRP54: Signal recognition particle 54 kDa protein 0.074 0.074
PSMC1 PSMC1: 26S protease regulatory subunit 4 0.074 0.763
ATAD3A ATAD3A: ATPase family AAA domain-containing protein 3A 0.074 0.074
SCYE1 SCYE1, EMAP2: Multisynthetase complex auxiliary component p43 [Contains: Endothe 0.074 0.074
PSMC6 PSMC6, SUG2: 26S protease regulatory subunit S10B 0.074 0.074
DARS DARS, PIG40: Aspartyl-tRNA synthetase, cytoplasmic 0.074 0.060
PSMC3 PSMC3, TBP1: 26S protease regulatory subunit 6A 0.074 0.074
EIF5AP1 EIF5A: Eukaryotic translation initiation factor 5A-1 0.067 0.174
EXOSC2 EXOSC2, RRP4: Exosome complex exonuclease RRP4 0.060 0.275
MDN1 MDN1, KIAA0301: Midasin 0.060 0.372
NARS NARS, ASNS: Asparaginyl-tRNA synthetase, cytoplasmic 0.060 0.060
EIF1AX EIF1AX, EIF1A, EIF4C: Eukaryotic translation initiation factor 1A, X-chromosomal 0.060 0.044
PRKDC PRKDC, HYRC, HYRC1: DNA-dependent protein kinase catalytic subunit 0.059 0.163
ORC2L ORC2L, ORC2: Origin recognition complex subunit 2 0.059 0.074
EIF2B5 EIF2B5, EIF2BE: Translation initiation factor eIF-2B subunit epsilon 0.059 0.372
CCNB2 CCNB2: G2/mitotic-specific cyclin-B2 0.051 0.038
CCNA2 CCNA2, CCN1, CCNA: Cyclin-A2 0.051 0.038
CCNB1 Cyclin B1 0.051 0.385
ASCC3 ASCC3, HELIC1: Activating signal cointegrator 1 complex subunit 3 0.047 0.060
XRCC3 XRCC3: DNA-repair protein XRCC3 0.047 0.044
POLR2G POLR2G: DNA-directed RNA polymerase II subunit RPB7 0.047 0.060
EIF1AY EIF1AY: Eukaryotic translation initiation factor 1A, Y-chromosomal 0.044 0.060
GCLC GCLC, GLCL, GLCLC: Glutamate--cysteine ligase catalytic subunit 0.044 0.060
VCP VCP: Transitional endoplasmic reticulum ATPase 0.044 0.461
BCS1L BCS1L, BCS1: Mitochondrial chaperone BCS1 0.044 0.044
BARD1 BARD1: BRCA1-associated RING domain protein 1 0.042 0.078
SRPR SRPR: Uncharacterized protein SRPR 0.041 0.307
VPS4A VPS4A, VPS4: Vacuolar protein sorting-associating protein 4A 0.036 0.036
NUBP1 NUBP1, NBP, NBP1: Nucleotide-binding protein 1 0.036 0.060
PEX1 PEX1: Peroxisome biogenesis factor 1 0.036 0.036
XAB1 XAB1, MBDIN, HUSSY-23: XPA-binding protein 1 0.0331 0.055
VPS4B VPS4B, SKD1, VPS42: Vacuolar protein sorting-associating protein 4B 0.028 0.036
TPX2 TPX2, C20orf1, C20orf2, DIL2, HCA519: Targeting protein for Xklp2 0.027 0.025
TPRKB TPRKB, CGI-121, My019: TP53RK-binding protein 0.027 0.027
DBF4 DBF4, ASK: Protein DBF4 homolog 0.027 0.053
PRSS15 LONP1, PRSS15: Lon protease homolog, mitochondrial precursor 0.027 0.027
AFG3L2 AFG3L2: AFG3-like protein 2 0.027 0.027
CLPX CLPX: ATP-dependent Clp protease ATP-binding subunit clpX-like, mitochondrial pr 0.027 0.027
RPA3 RPA3, REPA3, RPA14: Replication protein A 14 kDa subunit 0.027 0.027
RAD51L1 RAD51L1, RAD51B, REC2: DNA repair protein RAD51 homolog 2 0.027 0.027
DNAH11 N/A 0.027 0.027
RAD51L3 RAD51L3, RAD51D: DNA repair protein RAD51 homolog 4 0.027 0.027
CCNF CCNF: G2/mitotic-specific cyclin-F 0.027 0.0255
0.347
Total Score 17.00