Tbio LMO2 Rhombotin-2

Protein Summary

Description

Acts with TAL1/SCL to regulate red blood cell development. Also acts with LDB1 to maintain erythroid precursors in an immature state. LMO2 encodes a cysteine-rich, two LIM-domain protein that is required for yolk sac erythropoiesis. The LMO2 protein has a central and crucial role in hematopoietic development and is highly conserved. The LMO2 transcription start site is located approximately 25 kb downstream from the 11p13 T-cell translocation cluster (11p13 ttc), where a number T-cell acute lymphoblastic leukemia-specific translocations occur. Alternative splicing results in multiple transcript variants encoding different isoforms.[provided by RefSeq, Nov 2008]

Uniprot Accession IDs

• P25791
• Q9HD58

Gene Name

• LMO2

Ensembl ID

• ENST00000257818
• ENSP00000257818
• ENSG00000135363
• ENST00000395833
• ENSP00000379175
• ENST00000411482
• ENSP00000401967

Symbol

• RBTN2
• RBTNL1
• RHOM2
• TTG2
• TTG2
• LMO-2
• RBTN2
• RHOM2
• RBTNL1

Knowledge Table

Most Knowledge About	Knowledge Value (0 to 1 scale)
PubMedID	0.99
virus perturbation	0.99
molecular function	0.98
kinase perturbation	0.96
disease perturbation	0.93

Related Tools

Target Illumination GWAS Analytics (TIGA)

TIGA scores and ranks GWAS discovered associations according to the quantity and quality of the evidence supporting the association.

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GENEVA

GENEVA (GENe Expression Variance Analysis) allows you to identify RNA-sequencing datasets from the Gene Expression Omnibus (GEO) that contain conditions modulating a gene or a gene signature.

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GlyGen

GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.

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IDG Development Level Summary

Tdark

These are targets about which virtually nothing is known. They do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 284.09   (req: < 5)

Gene RIFs: 75   (req: <= 3)

Antibodies: 682   (req: <= 50)

Tbio

These targets do not have known drug or small molecule activities
- AND - satisfy two or more of the following criteria:

Pubmed score: 284.09   (req: >= 5)

Gene RIFs: 75   (req: > 3)

Antibodies: 682   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 13

Tchem

Target has at least one ChEMBL compound with an activity cutoff of < 30 nM - AND - satisfies the preceding conditions

Active Ligand: 0

Tclin

Target has at least one approved drug - AND - satisfies the preceding conditions

Active Drug: 0

GWAS Traits (8)

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Study Count	SNP Count	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean corpuscular hemoglobin concentration	EFO_0004528	1	1	1		85.4
red blood cell density measurement	EFO_0007978	1	1	1		82.8
mean reticulocyte volume	EFO_0010701	1	1	1		81.4
mean corpuscular volume	EFO_0004526	1	1	1		80.9
monocyte count	EFO_0005091	1	1	1		51.7

• Explore on Target Illumination GWAS Analytics (TIGA)

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GWAS Trait	EFO ID	Beta Count	Odds Ratio	Evidence (Mean Rank Score)	Provenance
mean corpuscular hemoglobin concentration	EFO_0004528	1		85.4
red blood cell density measurement	EFO_0007978	1		82.8
mean reticulocyte volume	EFO_0010701	1		81.4
mean corpuscular volume	EFO_0004526	1		80.9
monocyte count	EFO_0005091	1		51.7

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Orthologs (12)

1 – 5 of 12

Species	Name	Source ID	Gene ID	OMA	EggNOG	Inparanoid
Chimp	LIM domain only 2	VGNC:3248	738727
Macaque	LIM domain only 2		717502
Mouse	LIM domain only 2	MGI:102811	16909
Rat	LIM domain only 2	RGD:1307101	362176
Dog	LIM domain only 2 [Source:HGNC Symbol;Acc:HGNC:6642]

Species	Name	OMA	EggNOG	Inparanoid
Chimp	LIM domain only 2
Macaque	LIM domain only 2
Mouse	LIM domain only 2
Rat	LIM domain only 2
Dog	LIM domain only 2 [Source:HGNC Symbol;Acc:HGNC:6642]

Protein Structure (4 Structures, 1 AlphaFold Model)

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Representation

  axes   backbone   ball+stick   cartoon   rocket   rope   spacefill

Color Scheme

  target   atomindex   bfactor   chainname   electrostatic   element   hydrophobicity   resname   sstruc

Click on a row in the table to change the structure displayed.
More information can be found at RCSB PDB

AF-P25791-F1-model_v1

AlphaFold Structures Developed by DeepMind and EMBL-EBI

1 – 4 of 4

PDB Structure Id	Ligand	Method	Resolution (Å)	Residues	Fraction of Total Protein	Pub Year	Title

PDB Structure Id	Fraction of Total Protein	Resolution	Pub Year

Pathways (7)

Reactome (5)

KEGG (1)

WikiPathways (1)

Gene expression (Transcription) (R-HSA-74160)

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Data Source	Name	Explore in Pharos	Explore in Source
Reactome	Gene expression (Transcription)	1452 targets	R-HSA-74160
Reactome	Generic Transcription Pathway	1195 targets	R-HSA-212436
Reactome	RNA Polymerase II Transcription	1314 targets	R-HSA-73857
Reactome	RUNX1 regulates transcription of genes involved in differentiation of HSCs	100 targets	R-HSA-8939236
Reactome	Transcriptional regulation by RUNX1	208 targets	R-HSA-8878171

Name	Explore in Pharos	Explore in Source
Gene expression (Transcription)	1452 targets	R-HSA-74160
Generic Transcription Pathway	1195 targets	R-HSA-212436
RNA Polymerase II Transcription	1314 targets	R-HSA-73857
RUNX1 regulates transcription of genes involved in differentiation of HSCs	100 targets	R-HSA-8939236
Transcriptional regulation by RUNX1	208 targets	R-HSA-8878171

Gene Ontology Terms (15)

Functions (8)

Components (2)

Processes (5)

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Items per page:

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1 – 8 of 8

GO Term	Evidence	Assigned by
DNA-binding transcription activator activity, RNA polymerase II-specific	Inferred from Direct Assay (IDA)	BHF-UCL
DNA-binding transcription factor activity, RNA polymerase II-specific	Inferred from Direct Assay (IDA)	BHF-UCL
E-box binding	Inferred from Direct Assay (IDA)	BHF-UCL
RNA polymerase II regulatory region sequence-specific DNA binding	Inferred from Direct Assay (IDA)	BHF-UCL
bHLH transcription factor binding	Inferred from Physical Interaction (IPI)	BHF-UCL
cofactor binding	Inferred from Physical Interaction (IPI)	BHF-UCL
RNA polymerase II activating transcription factor binding	Inferred from Physical Interaction (IPI)	BHF-UCL
metal ion binding	Inferred from Electronic Annotation (IEA)	UniProtKB-KW

Protein-Protein Interactions (182)

Explore Interacting Targets

1 – 10 of 182

• See Interactions on String-DB

GORAB

Tbio

Novelty:  0.06288992

p_int:  0.999999986

p_wrong:  1.4e-8

Score:  0.182

Data Source:  BioPlex,STRINGDB

RECQL5

Tbio

Family:  Enzyme

Novelty:  0.01558497

p_int:  0.999999948

p_ni:  5.1e-8

p_wrong:  1e-9

Score:  0.618

Data Source:  BioPlex,STRINGDB

MEX3D

Tdark

Novelty:  0.02245732

p_int:  0.999999878

p_ni:  1.21e-7

p_wrong:  1e-9

Score:  0.181

Data Source:  BioPlex,STRINGDB

LDB1

Tbio

Novelty:  0.01110112

p_int:  0.999999701

p_ni:  2.95e-7

p_wrong:  4e-9

Score:  0.999

Data Source:  BioPlex,STRINGDB

MN1

Tbio

Novelty:  0.0015395

p_int:  0.999999518

p_ni:  5.1e-8

p_wrong:  4.31e-7

Score:  0.44

Data Source:  BioPlex,STRINGDB

RNF31

Tbio

Family:  Enzyme

Novelty:  0.01394304

p_int:  0.999998951

p_ni:  0.000001049

Data Source:  BioPlex

RBCK1

Tbio

Novelty:  0.02760333

p_int:  0.999997922

p_ni:  0.000002078

Data Source:  BioPlex

RPAP2

Tbio

Family:  Enzyme

Novelty:  0.03383659

p_int:  0.999994677

p_ni:  0.000005323

Score:  0.519

Data Source:  BioPlex,STRINGDB

SSBP3

Tbio

Novelty:  0.01955714

p_int:  0.999993645

p_ni:  0.000006355

Score:  0.742

Data Source:  BioPlex,STRINGDB

SSBP2

Tbio

Novelty:  0.06546999

p_int:  0.999993429

p_ni:  0.00000657

p_wrong:  2e-9

Score:  0.77

Data Source:  BioPlex,STRINGDB

Publication Statistics

PubMed Score  284.09

PubMed score by year

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PubTator Score  174.66

PubTator score by year

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Amino Acid Sequence

Residue Counts

Protein Sequence

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UniProt Keyword Find Similar Targets

No Header	No Header
3D-structure
Alternative splicing
Chromosomal rearrangement
Complete proteome
LIM domain
Metal-binding
Nucleus
Proto-oncogene
Reference proteome
Repeat

GWAS Trait Find Similar Targets

No Header	No Header
eosinophil count
eosinophil percentage of leukocytes
erythrocyte count
mean corpuscular hemoglobin concentration
mean corpuscular volume
mean reticulocyte volume
monocyte count
red blood cell density measurement

MGI Phenotype Find Similar Targets

No Header	No Header
cardiovascular system phenotype
cellular phenotype
embryo phenotype
endocrine/exocrine gland phenotype
growth/size/body region phenotype
hematopoietic system phenotype
immune system phenotype
integument phenotype
mortality/aging
neoplasm