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Tbio
VIM
Vimentin

Protein Summary
Description
Vimentins are class-III intermediate filaments found in various non-epithelial cells, especially mesenchymal cells. Vimentin is attached to the nucleus, endoplasmic reticulum, and mitochondria, either laterally or terminally. Involved with LARP6 in the stabilization of type I collagen mRNAs for CO1A1 and CO1A2. This gene encodes a type III intermediate filament protein. Intermediate filaments, along with microtubules and actin microfilaments, make up the cytoskeleton. The encoded protein is responsible for maintaining cell shape and integrity of the cytoplasm, and stabilizing cytoskeletal interactions. This protein is involved in neuritogenesis and cholesterol transport and functions as an organizer of a number of other critical proteins involved in cell attachment, migration, and signaling. Bacterial and viral pathogens have been shown to attach to this protein on the host cell surface. Mutations in this gene are associated with congenital cataracts in human patients. [provided by Ref ...more
Illumination Graph
Knowledge Table
Most Knowledge About
Knowledge Value (0 to 1 scale)
biological term
1
hub protein
1
interacting protein
1
kinase
1
protein complex
1


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: 3370.02   (req: < 5)
Gene RIFs: 325   (req: <= 3)
Antibodies: 3179   (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: 3370.02   (req: >= 5)
Gene RIFs: 325   (req: > 3)
Antibodies: 3179   (req: > 50)

- OR - satisfy the following criterion:

Gene Ontology Terms: 23
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 (2)
GWAS Trait
EFO ID
Study Count
SNP Count
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mean corpuscular volume
1
1
1
30.6
red blood cell distribution width
1
1
1
0.3
GWAS Trait
EFO ID
Beta Count
Odds Ratio
Evidence (Mean Rank Score)
Provenance
mean corpuscular volume
1
30.6
red blood cell distribution width
1
0.3
Orthologs (13)
1 – 5 of 13
Species
Name
Source ID
Gene ID
OMA
EggNOG
Inparanoid
Chimp
vimentin
VGNC:5877
493952
Macaque
vimentin
705289
Mouse
MGI:98932
22352
Rat
RGD:621646
81818
Dog
vimentin
VGNC:48263
477991
Species
Name
OMA
EggNOG
Inparanoid
Chimp
vimentin
Macaque
vimentin
Mouse
Rat
Dog
vimentin
Protein Data Bank (22)
1 – 5 of 22
PDB Structure Id
Ligand
Method
Resolution (Å)
M.W. (kDa)
Pub Year
Title
PDB Structure Id
M.W.
Resolution
Pub Year
Pathways (26)
Apoptosis (R-HSA-109581)

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

Items per page:
1 – 5 of 11
Data Source
Name
Explore in Pharos
Explore in Source
Reactome
Apoptosis
Reactome
Apoptotic cleavage of cellular proteins
Reactome
Apoptotic execution phase
Reactome
Caspase-mediated cleavage of cytoskeletal proteins
Reactome
Cytokine Signaling in Immune system
Name
Explore in Pharos
Explore in Source
Apoptosis
Apoptotic cleavage of cellular proteins
Apoptotic execution phase
Caspase-mediated cleavage of cytoskeletal proteins
Cytokine Signaling in Immune system
Gene Ontology Terms (37)
Items per page:
10
1 – 8 of 8
GO Term
Evidence
Assigned by
Inferred from Direct Assay (IDA)
MGI
Inferred from Direct Assay (IDA)
UniProtKB
Inferred from Physical Interaction (IPI)
IntAct
Inferred from Physical Interaction (IPI)
AgBase
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Physical Interaction (IPI)
UniProtKB
Inferred from Physical Interaction (IPI)
BHF-UCL
Inferred from Electronic Annotation (IEA)
Ensembl
Protein-Protein Interactions (244)
1 – 10 of 244
NEFM
Tbio
Novelty: 0.00239134
p_int: 0.999999746
p_ni: 2.54e-7
Score: 0.83
Data Source: BioPlex,STRINGDB
DES
Tbio
Novelty: 0.00651741
p_int: 0.999999562
p_ni: 2e-9
p_wrong: 4.36e-7
Score: 0.987
Data Source: BioPlex,STRINGDB
NES
Tbio
Novelty: 0.00035379
p_int: 0.999998286
p_ni: 0.00000171
p_wrong: 4e-9
Score: 0.864
Data Source: BioPlex,STRINGDB
INA
Tbio
Novelty: 0.00708581
p_int: 0.999996709
p_ni: 0.000003291
Score: 0.817
Data Source: BioPlex,STRINGDB
NEFL
Tbio
Novelty: 0.00049255
p_int: 0.999969372
p_ni: 0.000030628
Score: 0.694
Data Source: BioPlex,STRINGDB
GFAP
Tbio
Novelty: 0.00020932
p_int: 0.999935914
p_ni: 0.000064086
Score: 0.819
Data Source: BioPlex,Reactome,STRINGDB
GAN
Tbio
Novelty: 0.01069743
p_int: 0.998092133
p_ni: 0.001907867
Score: 0.906
Data Source: BioPlex,STRINGDB
SYNC
Tbio
Novelty: 0.04605223
p_int: 0.993061397
p_ni: 0.006938603
Score: 0.779
Data Source: BioPlex,STRINGDB
RSPRY1
Tdark
Novelty: 0.26883105
p_int: 0.990370232
p_ni: 0.009629768
Score: 0.621
Data Source: BioPlex,STRINGDB
PRMT8
Tchem
Family: Epigenetic
Novelty: 0.04213384
p_int: 0.949033937
p_ni: 0.050966063
Score: 0.324
Data Source: BioPlex,STRINGDB
Publication Statistics
PubMed Score  3370.02

PubMed score by year
PubTator Score  8543.76

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