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Tbio
LDB1
LIM domain-binding protein 1

Protein Summary
Description
Binds to the LIM domain of a wide variety of LIM domain-containing transcription factors. May regulate the transcriptional activity of LIM-containing proteins by determining specific partner interactions. Plays a role in the development of interneurons and motor neurons in cooperation with LHX3 and ISL1. Acts synergistically with LHX1/LIM1 in axis formation and activation of gene expression. Acts with LMO2 in the regulation of red blood cell development, maintaining erythroid precursors in an immature state (By similarity).
Uniprot Accession IDs
Gene Name
Ensembl ID
  • ENST00000361198
  • ENSP00000354616
  • ENSG00000198728
  • ENST00000425280
  • ENSP00000392466

Symbol
  • CLIM2
  • NLI
  • CLIM2
  • LDB-1
  • CLIM-2
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
biological process
0.95
molecular function
0.94
transcription factor binding site profile
0.91
transcription factor perturbation
0.91
transcription factor
0.79


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.
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.
GlyGen
GlyGen is a data integration and dissemination project for carbohydrate and glycoconjugate related data.
ARCHS4
ARCHS4 provides access to gene-function predictions based on RNA-seq co-expression, and gene expression levels across cell and tissues.
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: 95.28   (req: < 5)
Gene RIFs: 14   (req: <= 3)
Antibodies: 257   (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: 95.28   (req: >= 5)
Gene RIFs: 14   (req: > 3)
Antibodies: 257   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 34
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 (4)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
2
1
2
82.4
intelligence
3
1
1
6
75
self reported educational attainment
1
1
1
54
mean reticulocyte volume
1
1
1
39.3
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mathematical ability
2
82.4
intelligence
1
6
75
self reported educational attainment
1
54
mean reticulocyte volume
1
39.3
Orthologs (11)
1 – 5 of 11
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
LIM domain binding 1
VGNC:4727
450694
Macaque
LIM domain binding 1
712653
Mouse
MGI:894762
16825
Rat
RGD:1310359
309447
Dog
LIM domain binding 1
VGNC:42618
477804
Species
Name
OMA
EggNOG
Inparanoid
Chimp
LIM domain binding 1
Macaque
LIM domain binding 1
Mouse
Rat
Dog
LIM domain binding 1
Protein Data Bank (3)
1 – 3 of 3
PDB Structure Id
Ligand
Method
Resolution (Å)
M.W. (kDa)
Pub Year
Title
PDB Structure Id
M.W.
Resolution
Pub Year
Pathways (10)
Axon guidance (R-HSA-422475)

Click on a row in the table to change the structure displayed.

Items per page:
1 – 5 of 9
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Axon guidance
Reactome
Developmental Biology
Reactome
Gene expression (Transcription)
Reactome
Generic Transcription Pathway
Reactome
RNA Polymerase II Transcription
Name
Explore in Pharos
Explore in Source
Axon guidance
Developmental Biology
Gene expression (Transcription)
Generic Transcription Pathway
RNA Polymerase II Transcription
Gene Ontology Terms (41)
Items per page:
10
1 – 8 of 8
GO Term
Evidence
Assigned by
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Physical Interaction (IPI)
BHF-UCL
Inferred from Sequence or structural Similarity (ISS)
UniProtKB
Traceable Author Statement (TAS)
ProtInc
Inferred from Electronic Annotation (IEA)
Ensembl
Inferred from Electronic Annotation (IEA)
Ensembl
Inferred from Electronic Annotation (IEA)
Ensembl
Protein-Protein Interactions (108)
1 – 10 of 108
SSBP4
Tdark
Novelty: 0.27365687
p_int: 0.999999989
p_ni: 1.1e-8
Score: 0.95
Data Source: BioPlex,STRINGDB
LMO1
Tbio
Novelty: 0.01670419
p_int: 0.999999987
p_ni: 1.3e-8
Score: 0.995
Data Source: BioPlex,STRINGDB
SSBP3
Tbio
Novelty: 0.01955714
p_int: 0.999999985
p_ni: 1.5e-8
Score: 0.986
Data Source: BioPlex,STRINGDB
LHX6
Tbio
Family: TF
Novelty: 0.01603143
p_int: 0.999999796
p_ni: 2.04e-7
Score: 0.956
Data Source: BioPlex,STRINGDB
SSBP2
Tbio
Novelty: 0.06546999
p_int: 0.99999976
p_ni: 2.39e-7
Score: 0.967
Data Source: BioPlex,STRINGDB
LMO2
Tbio
Novelty: 0.0038279
p_int: 0.999999701
p_ni: 2.95e-7
p_wrong: 4e-9
Score: 0.999
Data Source: BioPlex,STRINGDB
LMX1B
Tbio
Family: TF
Novelty: 0.00405645
p_int: 0.999999549
p_ni: 4.51e-7
Score: 0.938
Data Source: BioPlex,STRINGDB
IDI2
Tbio
Family: Enzyme
Novelty: 0.02715208
p_int: 0.99999943
p_ni: 5.69e-7
Score: 0.832
Data Source: BioPlex,STRINGDB
MFAP4
Tbio
Novelty: 0.02023782
p_int: 0.999995911
p_ni: 0.000004089
Data Source: BioPlex
LHX4
Tbio
Family: TF
Novelty: 0.02047732
p_int: 0.999947729
p_ni: 0.000052271
Score: 0.983
Data Source: BioPlex,Reactome,STRINGDB
Publication Statistics
PubMed Score  95.28

PubMed score by year
PubTator Score  70.49

PubTator score by year
Amino Acid Sequence
Residue Counts
Protein Sequence
ProtVista Viewer
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