Protein: LHX3
LIM/homeobox protein Lhx3 (LIM homeobox protein 3)

Gene: LHX3
Organism: Homo sapiens
Interactions: 178
UniProt ID: Q9UBR4

Gene Ontology (top 5):
GO:0000785 - chromatin
GO:0000977 - RNA polymerase II transcription regulatory region sequence-specific DNA binding
GO:0000978 - RNA polymerase II cis-regulatory region sequence-specific DNA binding
GO:0000981 - DNA-binding transcription factor activity, RNA polymerase II-specific
GO:0001223 - transcription coactivator binding

Download interactions: TXT   MITAB-2.5

Interaction Interactor Experiments Homologs Category Interaction
Score
Confidence

1287935

LDB1
LIM domain-binding protein 1

4

20

High-throughput

0.902

High

1382434

ISL2
Insulin gene enhancer protein ISL-2

3

18

Small-scale

0.866

High

725119

HXC8
Homeobox protein Hox-C8

2

14

High-throughput

0.783

High

1025233

HXC5
Homeobox protein Hox-C5

2

14

High-throughput

0.783

High

1225096

KANK2
KN motif and ankyrin repeat domain-containing protein 2

2

20

High-throughput

0.783

High

1246449

FIGLA
Factor in the germline alpha

2

14

High-throughput

0.783

High

1341242

IKBD
NF-kappa-B inhibitor delta

2

5

High-throughput

0.783

High

1352080

LMX1A
LIM homeobox transcription factor 1-alpha

1

17

Small-scale

0.724

High

1216698

ANR45
Ankyrin repeat domain-containing protein 45

2

3

High-throughput

0.700

High

1309826

TEX14
Inactive serine/threonine-protein kinase TEX14

2

6

High-throughput

0.700

High

1340872

GA2L2
GAS2-like protein 2

2

2

High-throughput

0.700

High

1438312

PARVG
Gamma-parvin

2

3

High-throughput

0.700

High

1061566

ACTN3
Alpha-actinin-3

2

0

High-throughput

0.655

High

675712

TYY1
Transcriptional repressor protein YY1

3

15

High-throughput

0.653

High

1061908

TLE5
TLE family member 5

3

10

High-throughput

0.653

High

223951

LDB2
LIM domain-binding protein 2

1

20

Small-scale

0.647

High

877572

LHX1
LIM/homeobox protein Lhx1

1

18

Small-scale

0.647

High

961493

ISL1
Insulin gene enhancer protein ISL-1

1

19

Small-scale

0.647

High

1416160

SSBP4
Single-stranded DNA-binding protein 4

2

20

High-throughput

0.628

High

1416432

SSBP3
Single-stranded DNA-binding protein 3

2

20

High-throughput

0.628

High

814880

CUX1
Homeobox protein cut-like 1

1

17

High-throughput

0.618

High

893662

MNX1
Motor neuron and pancreas homeobox protein 1

1

20

High-throughput

0.618

High

1132675

MEF2D
Myocyte-specific enhancer factor 2D

1

3

High-throughput

0.618

High

1250684

BCOR
BCL-6 corepressor

1

16

High-throughput

0.618

High

1288852

ZFHX4
Zinc finger homeobox protein 4

1

12

High-throughput

0.618

High

1310137

MGAP
MAX gene-associated protein

1

10

High-throughput

0.618

High

1379961

LHX4
LIM/homeobox protein Lhx4

1

18

Small-scale

0.618

High

1396315

EHMT2
Histone-lysine N-methyltransferase EHMT2

1

14

High-throughput

0.618

High

1436922

EHMT1
Histone-lysine N-methyltransferase EHMT1

1

11

High-throughput

0.618

High

1458641

TRPS1
Zinc finger transcription factor Trps1

1

20

High-throughput

0.618

High

1458643

SIX4
Homeobox protein SIX4

1

9

High-throughput

0.618

High

1458646

ZHX1
Zinc fingers and homeoboxes protein 1

1

20

High-throughput

0.618

High

1458649

SATB2
DNA-binding protein SATB2

1

7

High-throughput

0.618

High

1458652

ZHX2
Zinc fingers and homeoboxes protein 2

1

16

High-throughput

0.618

High

506176

UBFL1
Upstream-binding factor 1-like protein 1

2

17

High-throughput

0.606

High

633812

PSB1
Proteasome subunit beta type-1

2

1

High-throughput

0.606

High

783763

ZNF76
Zinc finger protein 76

2

10

High-throughput

0.606

High

853861

MK09
Mitogen-activated protein kinase 9

2

3

High-throughput

0.606

High

998087

CSK21
Casein kinase II subunit alpha

2

7

High-throughput

0.606

High

1025299

CDK3
Cyclin-dependent kinase 3

2

3

High-throughput

0.606

High

1055284

MTG8
Protein CBFA2T1

2

4

High-throughput

0.606

High

1081508

INCA1
Protein INCA1

2

1

High-throughput

0.606

High

1120707

VEZF1
Vascular endothelial zinc finger 1

2

6

High-throughput

0.606

High

1160997

NRF1
Nuclear respiratory factor 1

2

4

High-throughput

0.606

High

1180197

QRIC1
Transcriptional regulator QRICH1

2

18

High-throughput

0.606

High

1252696

ZN574
Zinc finger protein 574

2

6

High-throughput

0.606

High

1331114

TEANC
Transcription elongation factor A N-terminal and central domain-containing protein

2

1

High-throughput

0.606

High

1347740

ZN417
Zinc finger protein 417

2

5

High-throughput

0.606

High

1400232

PNMA5
Paraneoplastic antigen-like protein 5

2

3

High-throughput

0.606

High

1402956

ZN587
Zinc finger protein 587

2

6

High-throughput

0.606

High

1415026

SNR25
U11/U12 small nuclear ribonucleoprotein 25 kDa protein

2

1

High-throughput

0.606

High

1416188

SCNM1
Sodium channel modifier 1

2

1

High-throughput

0.606

High

1447751

PAR11
Protein mono-ADP-ribosyltransferase PARP11

2

1

High-throughput

0.606

High

1452514

ABI2
Abl interactor 2

2

16

High-throughput

0.606

High

1454661

RCOR3
REST corepressor 3

2

8

High-throughput

0.606

High

1458481

CPNE7
Copine-7

2

1

High-throughput

0.606

High

1450909

RNF12
E3 ubiquitin-protein ligase RLIM

2

4

Small-scale

0.602

High

225713

AAKB2
5'-AMP-activated protein kinase subunit beta-2

2

0

High-throughput

0.580

High

288318

GCM2
Chorion-specific transcription factor GCMb

2

0

High-throughput

0.580

High

1034079

OCRL
Inositol polyphosphate 5-phosphatase OCRL

2

0

High-throughput

0.580

High

1393584

INT4
Integrator complex subunit 4

2

0

High-throughput

0.580

High

1435949

NRDE2
Nuclear exosome regulator NRDE2

2

0

High-throughput

0.580

High

1450758

FAIM1
Fas apoptotic inhibitory molecule 1

2

0

High-throughput

0.580

High

1088072

NFIA
Nuclear factor 1 A-type

1

20

High-throughput

0.578

High

143304

NFIB
Nuclear factor 1 B-type

1

18

High-throughput

0.561

High

474344

NFIC
Nuclear factor 1 C-type

1

20

High-throughput

0.561

High

639842

TAF1
Transcription initiation factor TFIID subunit 1

1

15

Small-scale

0.561

High

813495

AN32A
Acidic leucine-rich nuclear phosphoprotein 32 family member A

1

1

Small-scale

0.561

High

258618

SH21A
SH2 domain-containing protein 1A

2

7

High-throughput

0.553

High

288531

UBP2
Ubiquitin carboxyl-terminal hydrolase 2

2

1

High-throughput

0.553

High

353755

DRC4
Dynein regulatory complex subunit 4

2

1

High-throughput

0.553

High

551598

K2C3
Keratin, type II cytoskeletal 3

2

5

High-throughput

0.553

High

1119018

BYST
Bystin

2

2

High-throughput

0.553

High

1156611

CCDC6
Coiled-coil domain-containing protein 6

2

4

High-throughput

0.553

High

1180514

C19L2
CWF19-like protein 2

2

2

High-throughput

0.553

High

1180828

KLH38
Kelch-like protein 38

2

3

High-throughput

0.553

High

1200597

CTSRT
Cation channel sperm-associated targeting subunit tau

2

1

High-throughput

0.553

High

1280129

SEN54
tRNA-splicing endonuclease subunit Sen54

2

1

High-throughput

0.553

High

1314919

CC146
Coiled-coil domain-containing protein 146

2

3

High-throughput

0.553

High

1411588

NUD22
Uridine diphosphate glucose pyrophosphatase NUDT22

2

1

High-throughput

0.553

High

66551

TSPY2
Testis-specific Y-encoded protein 2

1

1

High-throughput

0.536

High

845998

DCC
Netrin receptor DCC

1

4

High-throughput

0.536

High

1010789

SSBP2
Single-stranded DNA-binding protein 2

1

20

High-throughput

0.536

High

1208649

BRM1L
Breast cancer metastasis-suppressor 1-like protein

1

1

High-throughput

0.536

High

1435863

SDS3
Sin3 histone deacetylase corepressor complex component SDS3

1

1

High-throughput

0.536

High

1458639

IF172
Intraflagellar transport protein 172 homolog

1

1

Small-scale

0.523

High

1130673

GSE1
Genetic suppressor element 1

1

0

High-throughput

0.513

High

174136

AT2A1
Sarcoplasmic/endoplasmic reticulum calcium ATPase 1

1

1

High-throughput

0.489

High

1294610

Z354C
Zinc finger protein 354C

1

7

High-throughput

0.481

High

1408440

CITE2
Cbp/p300-interacting transactivator 2

1

1

Small-scale

0.481

High

139030

BCL9
B-cell CLL/lymphoma 9 protein

1

20

High-throughput

0.479

High

154768

ARI1A
AT-rich interactive domain-containing protein 1A

1

20

High-throughput

0.479

High

161521

KMT2D
Histone-lysine N-methyltransferase 2D

1

20

High-throughput

0.479

High

174411

ZN609
Zinc finger protein 609

1

13

High-throughput

0.479

High

180950

TIF1A
Transcription intermediary factor 1-alpha

1

10

High-throughput

0.479

High

194624

KDM6A
Lysine-specific demethylase 6A

1

4

High-throughput

0.479

High

245650

ZEB2
Zinc finger E-box-binding homeobox 2

1

7

High-throughput

0.479

High

274058

CREST
Calcium-responsive transactivator

1

13

High-throughput

0.479

High

278442

NCOR1
Nuclear receptor corepressor 1

1

18

High-throughput

0.479

High

282793

E2F6
Transcription factor E2F6

1

3

High-throughput

0.479

High

505621

ATX1L
Ataxin-1-like

1

5

High-throughput

0.479

High

559781

NR2C1
Nuclear receptor subfamily 2 group C member 1

1

13

High-throughput

0.479

High

586351

ZEP1
Zinc finger protein 40

1

19

High-throughput

0.479

High

776144

SOX5
Transcription factor SOX-5

1

20

High-throughput

0.479

High

879574

NR2C2
Nuclear receptor subfamily 2 group C member 2

1

14

High-throughput

0.479

High

903272

SMCA2
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 2

1

12

High-throughput

0.479

High

926693

HIRA
Protein HIRA

1

1

High-throughput

0.479

High

927161

ATX3
Ataxin-3

1

1

Small-scale

0.479

High

927592

ATX1
Ataxin-1

1

5

High-throughput

0.479

High

1017505

FOXK1
Forkhead box protein K1

1

7

High-throughput

0.479

High

1047879

TLE1
Transducin-like enhancer protein 1

1

12

High-throughput

0.479

High

1055640

GABPA
GA-binding protein alpha chain

1

6

High-throughput

0.479

High

1055867

RING1
E3 ubiquitin-protein ligase RING1

1

7

High-throughput

0.479

High

1145553

RBBP5
Retinoblastoma-binding protein 5

1

1

High-throughput

0.479

High

1228286

ARID2
AT-rich interactive domain-containing protein 2

1

20

High-throughput

0.479

High

1235686

NIPBL
Nipped-B-like protein

1

8

High-throughput

0.479

High

1242503

NFRKB
Nuclear factor related to kappa-B-binding protein

1

17

High-throughput

0.479

High

1245184

MDEAS
Mitotic deacetylase-associated SANT domain protein

1

2

High-throughput

0.479

High

1257155

PAXI1
PAX-interacting protein 1

1

12

High-throughput

0.479

High

1277253

POGZ
Pogo transposable element with ZNF domain

1

8

High-throughput

0.479

High

1288006

PB1
Protein polybromo-1

1

16

High-throughput

0.479

High

1308728

FOXP4
Forkhead box protein P4

1

12

High-throughput

0.479

High

1317117

TAF1L
Transcription initiation factor TFIID subunit 1-like

1

14

High-throughput

0.479

High

1338282

KMT2C
Histone-lysine N-methyltransferase 2C

1

20

High-throughput

0.479

High

1338777

ARI1B
AT-rich interactive domain-containing protein 1B

1

20

High-throughput

0.479

High

1340167

KDM2B
Lysine-specific demethylase 2B

1

5

High-throughput

0.479

High

1356515

PHF10
PHD finger protein 10

1

20

High-throughput

0.479

High

1368276

DPF1
Zinc finger protein neuro-d4

1

20

High-throughput

0.479

High

1368405

REQU
Zinc finger protein ubi-d4

1

20

High-throughput

0.479

High

1368505

CBP
CREB-binding protein

1

20

High-throughput

0.479

High

1370762

SMRD2
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2

1

16

High-throughput

0.479

High

1380986

LMBL2
Lethal(3)malignant brain tumor-like protein 2

1

5

High-throughput

0.479

High

1392075

SMRD1
SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1

1

10

High-throughput

0.479

High

1396143

Z512B
Zinc finger protein 512B

1

13

High-throughput

0.479

High

1398092

ZN512
Zinc finger protein 512

1

9

High-throughput

0.479

High

1401424

CIC
Protein capicua homolog

1

20

High-throughput

0.479

High

1407790

ARI3A
AT-rich interactive domain-containing protein 3A

1

20

High-throughput

0.479

High

1410706

BCL7B
B-cell CLL/lymphoma 7 protein family member B

1

8

High-throughput

0.479

High

1411577

PYGO2
Pygopus homolog 2

1

11

High-throughput

0.479

High

1418412

PCGF6
Polycomb group RING finger protein 6

1

8

High-throughput

0.479

High

1419717

GTPB4
GTP-binding protein 4

1

4

High-throughput

0.479

High

1432494

FOXP1
Forkhead box protein P1

1

12

High-throughput

0.479

High

1434499

ZN644
Zinc finger protein 644

1

8

High-throughput

0.479

High

1434726

IKZF5
Zinc finger protein Pegasus

1

20

High-throughput

0.479

High

1446411

BRD7
Bromodomain-containing protein 7

1

8

High-throughput

0.479

High

1449306

SALL1
Sal-like protein 1

1

6

High-throughput

0.479

High

1452359

DDX56
Probable ATP-dependent RNA helicase DDX56

1

5

High-throughput

0.479

High

1454485

CHD7
Chromodomain-helicase-DNA-binding protein 7

1

7

High-throughput

0.479

High

1458640

TCF20
Transcription factor 20

1

12

High-throughput

0.479

High

1458647

INO80
Chromatin-remodeling ATPase INO80

1

13

High-throughput

0.479

High

1458648

PRR12
Proline-rich protein 12

1

15

High-throughput

0.479

High

1458650

SMC3
Structural maintenance of chromosomes protein 3

1

4

High-throughput

0.479

High

1458651

NCOR2
Nuclear receptor corepressor 2

1

12

High-throughput

0.479

High

519573

MYBB
Myb-related protein B

1

0

High-throughput

0.458

High

1352172

MORC4
MORC family CW-type zinc finger protein 4

1

0

High-throughput

0.458

High

1357166

GATD1
GATA zinc finger domain-containing protein 1

1

0

High-throughput

0.458

High

839638

HUTH
Histidine ammonia-lyase

1

2

High-throughput

0.457

High

1392255

DDX27
Probable ATP-dependent RNA helicase DDX27

1

2

High-throughput

0.437

High

1411203

CHOLN
Protein cholesin

1

3

High-throughput

0.437

High

1201082

ACTBL
Beta-actin-like protein 2

1

7

High-throughput

0.407

High

61858

F221A
Protein FAM221A

2

0

High-throughput

0.316

High

276867

VATG1
V-type proton ATPase subunit G 1

2

0

High-throughput

0.316

High

639653

SAT1
Diamine acetyltransferase 1

2

0

High-throughput

0.316

High

907885

CLCKA
Chloride channel protein ClC-Ka

2

0

High-throughput

0.316

High

956690

CKS1
Cyclin-dependent kinases regulatory subunit 1

2

0

High-throughput

0.316

High

1169082

INSC
Protein inscuteable homolog

2

0

High-throughput

0.316

High

1332380

IQUB
IQ motif and ubiquitin-like domain-containing protein

2

0

High-throughput

0.316

High

1385791

RHDF1
Inactive rhomboid protein 1

2

0

High-throughput

0.316

High

1399230

GUCD1
Protein GUCD1

2

0

High-throughput

0.316

High

1399900

TSSK3
Testis-specific serine/threonine-protein kinase 3

2

0

High-throughput

0.316

High

1410817

AIF1L
Allograft inflammatory factor 1-like

2

0

High-throughput

0.316

High

1430132

ENKD1
Enkurin domain-containing protein 1

2

0

High-throughput

0.316

High

1434807

F124B
Protein FAM124B

2

0

High-throughput

0.316

High

1458642

PS1C2
Psoriasis susceptibility 1 candidate gene 2 protein

2

0

High-throughput

0.316

High

1458645

CDC23
Cell division cycle protein 23 homolog

2

0

High-throughput

0.316

High

249366

PLXC1
Plexin-C1

1

0

High-throughput

0.279

Low

1458644

TSKS
Testis-specific serine kinase substrate

1

0

High-throughput

0.279

Low

1432596

CPVL
Probable serine carboxypeptidase CPVL

1

0

High-throughput

0.249

Low


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Last updated: 11Aug2025