PIPs: Human Protein-Protein Interaction Prediction

Evidence of Interaction Between SNRPD2 and LSM4

The interaction score between SNRPD2 and LSM4 is 7.41E4.

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 SNRPD2 and LSM4 = 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

Organism

SNRPD2 Orthologue

LSM4 Orthologue

Experiment

Accession

Accession

bakers yeast

Y2H
Other
AffinityCaptureMS

Get References From PubMed

worm

Q18786

Q19952

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.

0.593

Domains

Domains present in SNRPD2 and LSM4:

Domains in SNRPD2

Domains in LSM4

IPR001163	Small nuclear ribonucleoprotein (Sm protein)
IPR010920	Small nuclear-like ribonucleoprotein
IPR006649	snRNP domain

IPR001163	Small nuclear ribonucleoprotein (Sm protein)
IPR006649	snRNP domain

The Chi square scores for co-occurrence of domains that are present in SNRPD2 and LSM4 are listed below.

Domain 1		Domain 2		Chi Square
IPR001163	Small nuclear ribonucleoprotein (Sm protein)	IPR006649	snRNP domain	1325.87
IPR001163	Small nuclear ribonucleoprotein (Sm protein)	IPR001163	Small nuclear ribonucleoprotein (Sm protein)	1297.61
IPR006649	snRNP domain	IPR006649	snRNP domain	1206.57
IPR010920	Small nuclear-like ribonucleoprotein	IPR006649	snRNP domain	1168.89
IPR010920	Small nuclear-like ribonucleoprotein	IPR001163	Small nuclear ribonucleoprotein (Sm protein)	1143.95

The background colour of the table refers to:

Blue Domain is only present in SNRPD2
Yellow Domain is only present in LSM4
Green Domain is present in both SNRPD2 and LSM4

0.265

Post-translational Modifications

No PTMs were used in calculating likelihood of interaction

Localisation

Protein: SNRPD2

Localisation	Reference
Nucleus	HPRD

Protein: LSM4

Localisation	Reference
Nucleus	HPRD
Cytoplasm	HPRD

Transitive Score

The common interactors between SNRPD2 and LSM4 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 SNRPD2 andLSM4. The values listed are therefore not the final Score value for the listed interactions.

With a Score value ≥0.025 , SNRPD2 has 248 interactors and LSM4 has 263 interactors of which there are 194 common interactors.

Common Interactor	Name of Common Interactor	Score for SNRPD2-Interactor (?)	Score for LSM4-Interactor (?)
SNRPF	SNRPF, PBSCF: Small nuclear ribonucleoprotein F	1.05E4	1.22
LSM5	LSM5: U6 snRNA-associated Sm-like protein LSm5	3.51E3	323.00
SNRPD3	SNRPD3: Small nuclear ribonucleoprotein Sm D3	2.07E3	323.00
LSM2	LSM2, C6orf28, G7b: U6 snRNA-associated Sm-like protein LSm2	1.64E3	691.00
SNRPG	SNRPG, PBSCG: Small nuclear ribonucleoprotein G	691.00	691.00
SNRPD1	SNRPD1: Small nuclear ribonucleoprotein Sm D1	691.00	323.00
LSM7	LSM7: U6 snRNA-associated Sm-like protein LSm7	691.00	1.64E3
LSM6	LSM6: U6 snRNA-associated Sm-like protein LSm6	323.00	323.00
PRPF4	PRPF4, PRP4: U4/U6 small nuclear ribonucleoprotein Prp4	69.60	69.60
KIAA0788	ASCC3L1, HELIC2, KIAA0788: U5 small nuclear ribonucleoprotein 200 kDa helicase	32.60	32.60
PRP19	PRPF19, NMP200, PRP19, SNEV: Pre-mRNA-processing factor 19	25.60	25.60
SNRPE	SNRPE: Small nuclear ribonucleoprotein E	8.73	2.91
PRPF8	PRPF8, PRPC8: Pre-mRNA-processing-splicing factor 8	3.05	3.05
SNRPB	SNRPB, COD, SNRPB1: Small nuclear ribonucleoprotein-associated proteins B and B'	2.91	2.91
LSM8	LSM8: U6 snRNA-associated Sm-like protein LSm8	2.60	1.22
LSM3	LSM3, MDS017: U6 snRNA-associated Sm-like protein LSm3	2.60	323.00
SF3A2	SF3A2, SAP62: Splicing factor 3A subunit 2	1.84	1.84
PRPF3	PRPF3, HPRP3, PRP3: U4/U6 small nuclear ribonucleoprotein Prp3	1.84	1.10
PRPF31	PRPF31, PRP31: U4/U6 small nuclear ribonucleoprotein Prp31	1.10	1.10
LSM1	LSM1, CASM: U6 snRNA-associated Sm-like protein LSm1	0.739	803.00
GNB2L1	Lung cancer oncogene 7	0.293	0.083
CHD4	CHD4: Chromodomain-helicase-DNA-binding protein 4	0.293	0.293
DDX50	DDX50: ATP-dependent RNA helicase DDX50	0.293	0.083
DHX15	DHX15, DBP1, DDX15: Putative pre-mRNA-splicing factor ATP-dependent RNA helicase	0.293	0.293
PPP2R2A	PPP2R2A: Serine/threonine-protein phosphatase 2A 55 kDa regulatory subunit B alp	0.263	0.123
CNOT7	CNOT7, CAF1: CCR4-NOT transcription complex subunit 7	0.263	0.123
EIF3S2	EIF3S2, TRIP1: Eukaryotic translation initiation factor 3 subunit 2	0.263	0.123
IEF-SSP-9502	PWP1: Periodic tryptophan protein 1 homolog	0.263	0.123
BAT1	N/A	0.263	0.123
WDR77	WDR77, HKMT1069, hCG_39991: Androgen receptor cofactor p44	0.263	0.293
LSM10	LSM10: U7 snRNA-associated Sm-like protein LSm10	0.237	0.265
LSM11	LSM11: U7 snRNA-associated Sm-like protein LSm11	0.237	0.265
SNRPN	HCERN3, SNRPN, SMN: Small nuclear ribonucleoprotein-associated protein N	0.141	0.156
SMARCA4	SMARCA4, BRG1, SNF2B, SNF2L4: Probable global transcription activator SNF2L4	0.137	0.137
DDX46	DDX46, KIAA0801: Probable ATP-dependent RNA helicase DDX46	0.137	0.083
DDX21	DDX21: Nucleolar RNA helicase 2	0.137	0.137
GTF3C2	GTF3C2, KIAA0011: General transcription factor 3C polypeptide 2	0.137	0.137
SEC13L1	SEC13, D3S1231E, SEC13L1, SEC13R: Protein SEC13 homolog	0.137	0.083
WDR41	N/A	0.137	0.137
DDX10	DDX10: Probable ATP-dependent RNA helicase DDX10	0.123	0.074
SND1	SND1, TDRD11: Staphylococcal nuclease domain-containing protein 1	0.123	0.074
DDX1	DDX1: ATP-dependent RNA helicase DDX1	0.123	0.074
WDR57	WDR57, PRP8BP, SFP38: WD repeat-containing protein 57	0.123	0.123
DDX19A	DDX19A, DDX19L: ATP-dependent RNA helicase DDX19A	0.123	0.123
WDR3	WDR3: WD repeat-containing protein 3	0.123	0.074
EIF4A1	EIF4A1, DDX2A, EIF4A: Eukaryotic initiation factor 4A-I	0.123	0.123
DDX23	DDX23: Probable ATP-dependent RNA helicase DDX23	0.123	0.074
DDX18	DDX18: ATP-dependent RNA helicase DDX18	0.123	0.074
DDX49	DDX49: Probable ATP-dependent RNA helicase DDX49	0.123	0.074
NUP37	NUP37: Nucleoporin Nup37	0.123	0.137
WDR18	N/A	0.123	0.123
WDR12	WDR12: WD repeat-containing protein 12	0.123	0.123
DDX41	DDX41, ABS: Probable ATP-dependent RNA helicase DDX41	0.123	0.123
STRAP	STRAP, MAWD, UNRIP: Serine-threonine kinase receptor-associated protein	0.123	0.137
DDX48	EIF4A3, DDX48, KIAA0111: Eukaryotic initiation factor 4A-III	0.123	0.123
CSTF1	CSTF1: Cleavage stimulation factor 50 kDa subunit	0.123	0.074
RBBP7	RBBP7, RBAP46: Histone-binding protein RBBP7	0.123	0.074
DDX27	DDX27, RHLP, HSPC259, PP3241: Probable ATP-dependent RNA helicase DDX27	0.123	0.074
NUP43	N/A	0.123	0.137
RBBP4	RBBP4, RBAP48: Histone-binding protein RBBP4	0.123	0.123
TSSC1	TSSC1: Protein TSSC1	0.123	0.074
DDX47	E4-DBP: DEAD box protein	0.123	0.123
CGI-48	UTP18, WDR50, CDABP0061, CGI-48: U3 small nucleolar RNA-associated protein 18 ho	0.123	0.123
SMARCA5	SMARCA5, SNF2H, WCRF135: SWI/SNF-related matrix-associated actin-dependent regul	0.123	0.123
BOP1	BOP1, KIAA0124: Ribosome biogenesis protein BOP1	0.123	0.263
FLJ10439	WDR74, NSA1: WD repeat-containing protein 74	0.123	0.074
DDX39	DDX39: ATP-dependent RNA helicase DDX39	0.123	0.123
NULL	N/A	0.119	0.119
WDR1	N/A	0.083	0.083
FBXW2	FBXW2, FBW2, FWD2: F-box/WD repeat-containing protein 2	0.083	0.083
SMARCAL1	SMARCAL1, HARP: SWI/SNF-related matrix-associated actin-dependent regulator of c	0.083	0.067
DDB2	DDB2: DNA damage-binding protein 2	0.083	0.083
PWP2H	PWP2, PWP2H: Periodic tryptophan protein 2 homolog	0.074	0.123
DDX54	DDX54: ATP-dependent RNA helicase DDX54	0.074	0.074
TAF5	TAF5, TAF2D: Transcription initiation factor TFIID subunit 5	0.074	0.060
RAD54L	RAD54L, RAD54A: DNA repair and recombination protein RAD54-like	0.074	0.074
XPMC2H	REXO4, PMC2, XPMC2H: RNA exonuclease 4	0.074	0.060
PAK1IP1	PAK1IP1, PIP1, WDR84: p21-activated protein kinase-interacting protein 1	0.074	0.074
BTAF1	BTAF1, TAF172: TATA-binding protein-associated factor 172	0.074	0.060
WDR68	WDR68, HAN11: WD repeat-containing protein 68	0.074	0.123
RNU3IP2	RRP9, RNU3IP2, U355K: U3 small nucleolar RNA-interacting protein 2	0.074	0.123
KIAA0052	SKIV2L2, KIAA0052: Superkiller viralicidic activity 2-like 2	0.074	0.060
BLM	BLM, RECQ2, RECQL3: Bloom syndrome protein	0.074	0.060
CDC20	CDC20: Cell division cycle protein 20 homolog	0.074	0.137
DHX16	DHX16, DBP2, DDX16, KIAA0577: Putative pre-mRNA-splicing factor ATP-dependent RN	0.074	0.060
RECQL	RECQL, RECQL1: ATP-dependent DNA helicase Q1	0.074	0.060
SEC31L1	N/A	0.074	0.060
POLE	POLE, POLE1: DNA polymerase epsilon catalytic subunit A	0.074	0.074
WDR39	CIAO1, WDR39: Protein CIAO1	0.074	0.074
POLD1	POLD1, POLD: DNA polymerase delta catalytic subunit	0.074	0.123
LRBA	LRBA, BGL, CDC4L, LBA: Lipopolysaccharide-responsive and beige-like anchor prote	0.074	0.060
CHAF1B	CHAF1B, CAF1A, CAF1P60, MPHOSPH7, MPP7: Chromatin assembly factor 1 subunit B	0.074	0.074
ASCC3	ASCC3, HELIC1: Activating signal cointegrator 1 complex subunit 3	0.074	0.123
CDC40	CDC40, EHB3, PRP17, PRPF17: Pre-mRNA-processing factor 17	0.074	0.060
ISG20	ISG20, HEM45: Interferon-stimulated gene 20 kDa protein	0.067	0.041
WDR8	WDR8: WD repeat-containing protein 8	0.067	0.067
CORO1A	CORO1A, CORO1: Coronin-1A	0.060	0.044
CORO7	CORO7: Coronin-7	0.060	0.044
WRN	WRN, RECQ3, RECQL2: Werner syndrome ATP-dependent helicase	0.060	0.044
IFIH1	IFIH1, MDA5, RH116: Interferon-induced helicase C domain-containing protein 1	0.060	0.060
CNOT8	CNOT8, CALIF, POP2: CCR4-NOT transcription complex subunit 8	0.060	0.044
PARN	PARN, DAN: Poly(A)-specific ribonuclease PARN	0.060	0.060
DHX38	DHX38, DDX38, KIAA0224, PRP16: Pre-mRNA-splicing factor ATP-dependent RNA helica	0.060	0.060
DHX35	C20orf15, DHX35, DDX35: Probable ATP-dependent RNA helicase DHX35	0.060	0.044
DDX3X	DDX3X, DBX, DDX3: ATP-dependent RNA helicase DDX3X	0.060	0.060
DDX5	DDX5, G17P1, HELR, HLR1: Probable ATP-dependent RNA helicase DDX5	0.060	0.036
COPB2	COPB2: Coatomer subunit beta'	0.060	0.074
Nle	NLE1, HUSSY-07: Notchless protein homolog 1	0.060	0.074
EML3	EML3: Echinoderm microtubule-associated protein-like 3	0.060	0.044
SKIV2L	SKIV2L, XXbac-BCX116I9.5-001, XXbac-BPG116M5.1-001: Superkiller viralicidic acti	0.060	0.074
COPA	COPA: Coatomer subunit alpha	0.060	15.90
AAMP	AAMP: Angio-associated migratory cell protein	0.060	0.074
DDX17	DDX17: Probable ATP-dependent RNA helicase DDX17	0.060	0.044
PIK3R4	PIK3R4: Phosphoinositide 3-kinase regulatory subunit 4	0.060	0.060
DDX56	DDX56, DDX21, NOH61: Probable ATP-dependent RNA helicase DDX56	0.060	0.044
RAE1	RAE1, MRNP41: mRNA export factor	0.060	0.044
HELLS	HELLS, PASG, Nbla10143, SMARCA6: Lymphoid-specific helicase	0.060	0.123
GNB1	GNB1: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1	0.060	0.060
GRWD1	GRWD1, GRWD, WDR28: Glutamate-rich WD repeat-containing protein 1	0.060	0.060
JMJD2C	JMJD2C, GASC1, JHDM3C, KIAA0780: JmjC domain-containing histone demethylation pr	0.060	0.036
DDX28	DDX28, MDDX28: Probable ATP-dependent RNA helicase DDX28	0.060	0.067
NUTF2	NUTF2, NTF2: Nuclear transport factor 2	0.059	0.207
RNASEH1	RNASEH1, RNH1: Ribonuclease H1	0.055	0.0331
POLG	POLG, MDP1, POLG1, POLGA: DNA polymerase subunit gamma-1	0.055	0.027
PHF20	PHF20, C20orf104, GLEA2, HCA58, NZF, TZP: PHD finger protein 20	0.053	0.039
GNB1L	GNB1L, GY2, FKSG1, KIAA1645, WDR14: Guanine nucleotide-binding protein subunit b	0.050	0.050
RAD54B	RAD54B: DNA repair and recombination protein RAD54B	0.050	0.067
WDR67	WDR67: WD repeat-containing protein 67	0.044	0.041
TTF2	TTF2: Transcription termination factor 2	0.044	0.060
DDX58	DDX58: Probable ATP-dependent RNA helicase DDX58	0.044	0.028
SMARCA3	HLTF, HIP116A, RNF80, SMARCA3, SNF2L3, ZBU1: Helicase-like transcription factor	0.044	0.036
WDR26	WDR26, CDW2, PRO0852, MIP2: WD repeat-containing protein 26	0.044	0.036
WDR37	N/A	0.044	0.036
ARPC1A	ARPC1A, SOP2L: Actin-related protein 2/3 complex subunit 1A	0.044	0.060
AAAS	AAAS, ADRACALA, GL003: Aladin	0.044	0.050
DDX52	DDX52, ROK1, HUSSY-19: Probable ATP-dependent RNA helicase DDX52	0.044	0.036
WIPI2	WIPI2, CGI-50: WD repeat domain phosphoinositide-interacting protein 2	0.044	0.044
ERCC3	ERCC3, XPB, XPBC: TFIIH basal transcription factor complex helicase XPB subunit	0.044	0.044
DDX24	DDX24: ATP-dependent RNA helicase DDX24	0.044	0.044
CORO1C	CORO1C, CRNN4: Coronin-1C	0.044	0.060
THRAP5	MED16, DRIP92, THRAP5: Mediator of RNA polymerase II transcription subunit 16	0.044	0.067
ARPC1B	ARC41, ARPC1B: Actin-related protein 2/3 complex subunit 1B	0.044	0.044
WDHD1	WDHD1, AND1: WD repeat and HMG-box DNA-binding protein 1	0.044	0.036
HIRA	HIRA, DGCR1, HIR, TUPLE1: Protein HIRA	0.044	0.044
DDX3Y	DDX3Y, DBY: ATP-dependent RNA helicase DDX3Y	0.044	0.036
POLA	POLA1, POLA: DNA polymerase alpha catalytic subunit	0.044	0.044
GNB2	GNB2: Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-2	0.044	0.060
LGP2	DHX58, D11LGP2E, LGP2: Probable ATP-dependent RNA helicase DHX58	0.044	0.060
REXO2	REXO2, SFN, CGI-114, SMFN: Oligoribonuclease, mitochondrial precursor	0.044	0.028
REV3L	REV3L, POLZ, REV3: DNA polymerase zeta catalytic subunit	0.041	0.0308
NBEAL2	N/A	0.036	0.067
BCDO2	PTS: 6-pyruvoyl tetrahydrobiopterin synthase	0.036	0.036
WDR45L	N/A	0.036	0.044
DICER1	DICER1, DICER, HERNA, KIAA0928: Endoribonuclease Dicer	0.036	0.044
WDR42A	N/A	0.036	0.041
WDR48	WDR48, KIAA1449: WD repeat-containing protein 48	0.036	0.036
SETDB1	SETDB1, KIAA0067: Histone-lysine N-methyltransferase SETDB1	0.036	0.041
RECQL4	RECQL4, RECQ4: ATP-dependent DNA helicase Q4	0.036	0.041
WDR13	WDR13: WD repeat-containing protein 13	0.0308	0.041
CORO1B	CORO1B: Coronin-1B	0.028	0.028
PEX7	PEX7, PTS2R: Peroxisomal targeting signal 2 receptor	0.028	0.036
KATNB1	KATNB1: Katanin p80 WD40-containing subunit B1	0.028	0.041
CETN2	CETN2, CALT, CEN2: Centrin-2	0.028	0.0308
SERBP1	N/A	0.027	0.027
PSME3	PSME3: Proteasome activator complex subunit 3	0.027	0.027
MRPL22	MRPL22, HSPC158: 39S ribosomal protein L22, mitochondrial precursor	0.027	0.027
PTD004	N/A	0.027	0.027
BUB3	N/A	0.027	0.027
PTGES3	PTGES3, P23, TEBP: Prostaglandin E synthase 3	0.027	0.027
BRWD2	BRWD2, WDR11, WDR15: Bromodomain and WD repeat-containing protein 2	0.027	0.027
FBXW8	FBXW8, FBW6, FBW8, FBX29, FBXO29, FBXW6: F-box/WD repeat-containing protein 8	0.027	0.027
WSB1	WSB1, SWIP1: WD repeat and SOCS box-containing protein 1	0.027	0.027
ERCC8	ERCC8, CKN1, CSA: DNA excision repair protein ERCC-8	0.027	0.027
PHF1	N/A	0.027	0.027
TLE3	TLE3, KIAA1547: Transducin-like enhancer protein 3	0.027	0.027
KIF21A	N/A	0.027	0.027
WDR34	N/A	0.027	0.027
WDR53	N/A	0.027	0.027
NEDD1	N/A	0.027	0.027
TLE6	TLE6: Transducin-like enhancer protein 6	0.027	0.027
WDR72	N/A	0.027	0.027
SMARCAD1	SMARCAD1, KIAA1122: SWI/SNF-related matrix-associated actin-dependent regulator	0.027	0.027
TAF5L	TAF5L, PAF65B: TAF5-like RNA polymerase II p300/CBP-associated factor-associated	0.027	0.027
DDX53	DDX53, CAGE: Probable ATP-dependent RNA helicase DDX53	0.027	0.027
RFWD2	RFWD2, COP1, RNF200: E3 ubiquitin-protein ligase RFWD2	0.027	0.027
BRWD1	N/A	0.027	0.027
REXO1L1	REXO1L1, GOR: Exonuclease GOR	0.027	0.027
WDR54	N/A	0.027	0.027
TREX1	TREX1: Three prime repair exonuclease 1	0.027	0.027
WDR17	N/A	0.027	0.027
FLJ12671	ISG20L2, HSD38, HSD-38: Interferon-stimulated 20 kDa exonuclease-like 2	0.027	0.027
TDRD4	TDRD4: Tudor domain-containing protein 4	0.027	0.027
EXOSC8	EXOSC8, OIP2, RRP43: Exosome complex exonuclease RRP43	0.027	0.027
SNRPB	N/A	0.0258	0.0258

0.572

Total Score

7.41E4