UniProtKB - P48059 (LIMS1_HUMAN)
LIM and senescent cell antigen-like-containing domain protein 1
LIMS1
Functioni
GO - Molecular functioni
- protein-containing complex binding Source: Ensembl
- protein kinase binding Source: UniProtKB
- zinc ion binding Source: UniProtKB
GO - Biological processi
- cell aging Source: ProtInc
- cell-cell adhesion Source: GO_Central
- cell-cell junction organization Source: GO_Central
- cell junction assembly Source: Reactome
- cellular response to transforming growth factor beta stimulus Source: UniProtKB
- establishment of protein localization Source: UniProtKB
- negative regulation of transcription, DNA-templated Source: UniProtKB
- positive regulation of cell-substrate adhesion Source: UniProtKB
- positive regulation of focal adhesion assembly Source: UniProtKB
- positive regulation of gene expression Source: UniProtKB
- positive regulation of GTPase activity Source: UniProtKB
- positive regulation of integrin-mediated signaling pathway Source: GO_Central
- positive regulation of NIK/NF-kappaB signaling Source: CAFA
- positive regulation of substrate adhesion-dependent cell spreading Source: UniProtKB
- tumor necrosis factor-mediated signaling pathway Source: CAFA
Keywordsi
Ligand | Metal-binding, Zinc |
Enzyme and pathway databases
PathwayCommonsi | P48059 |
Reactomei | R-HSA-446353, Cell-extracellular matrix interactions R-HSA-446388, Regulation of cytoskeletal remodeling and cell spreading by IPP complex components |
Names & Taxonomyi
Protein namesi | Recommended name: LIM and senescent cell antigen-like-containing domain protein 1Alternative name(s): Particularly interesting new Cys-His protein 1 Short name: PINCH-1 Renal carcinoma antigen NY-REN-48 |
Gene namesi | Name:LIMS1 Synonyms:PINCH, PINCH1 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:6616, LIMS1 |
MIMi | 602567, gene |
neXtProti | NX_P48059 |
VEuPathDBi | HostDB:ENSG00000169756.16 |
Subcellular locationi
Plasma membrane
Other locations
Cytosol
- cytosol Source: Reactome
Plasma Membrane
- plasma membrane Source: UniProtKB-SubCell
Other locations
- cell-cell junction Source: UniProtKB
- cytoplasm Source: GO_Central
- focal adhesion Source: UniProtKB
- perinuclear region of cytoplasm Source: UniProtKB
- protein-containing complex Source: Ensembl
Keywords - Cellular componenti
Cell junction, Cell membrane, MembranePathology & Biotechi
Mutagenesis
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Mutagenesisi | 42 | F → A: Loss of interaction with ILK and loss of localization to focal adhesion. 2 Publications | 1 | |
Mutagenesisi | 56 | R → A: Alters interaction with ILK. 1 Publication | 1 | |
Mutagenesisi | 61 | H → D: Alters interaction with ILK. 1 Publication | 1 | |
Mutagenesisi | 62 | D → A: Alters interaction with ILK. 1 Publication | 1 | |
Mutagenesisi | 66 | L → D: Alters interaction with ILK. 1 Publication | 1 |
Organism-specific databases
DisGeNETi | 3987 |
OpenTargetsi | ENSG00000169756 |
PharmGKBi | PA30389 |
Miscellaneous databases
Pharosi | P48059, Tbio |
Genetic variation databases
BioMutai | LIMS1 |
DMDMi | 18266876 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Initiator methioninei | Removed1 Publication | |||
ChainiPRO_0000075888 | 2 – 325 | LIM and senescent cell antigen-like-containing domain protein 1Add BLAST | 324 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Modified residuei | 2 | N-acetylalanine1 Publication | 1 |
Keywords - PTMi
AcetylationProteomic databases
EPDi | P48059 |
jPOSTi | P48059 |
MassIVEi | P48059 |
MaxQBi | P48059 |
PaxDbi | P48059 |
PeptideAtlasi | P48059 |
PRIDEi | P48059 |
ProteomicsDBi | 55846 [P48059-1] 55847 [P48059-2] 55848 [P48059-3] 55849 [P48059-4] 55850 [P48059-5] |
2D gel databases
OGPi | P48059 |
PTM databases
iPTMneti | P48059 |
PhosphoSitePlusi | P48059 |
SwissPalmi | P48059 |
Expressioni
Tissue specificityi
Gene expression databases
Bgeei | ENSG00000169756, Expressed in endometrium and 222 other tissues |
ExpressionAtlasi | P48059, baseline and differential |
Genevisiblei | P48059, HS |
Organism-specific databases
HPAi | ENSG00000169756, Low tissue specificity |
Interactioni
Subunit structurei
Interacts (via LIM zinc-binding 5) with TGFB1I1 (By similarity).
Interacts with integrin-linked protein kinase 1 (ILK) via the first LIM domain, and in competition with LIMS2. Part of the heterotrimeric IPP complex composed of integrin-linked kinase (ILK), LIMS1 or LIMS2, and PARVA.
Interacts with SH3/SH2 adapter NCK2, thereby linking the complex to cell surface receptors.
By similarity4 PublicationsBinary interactionsi
Hide detailsP48059
Isoform 3 [P48059-3]
GO - Molecular functioni
- protein kinase binding Source: UniProtKB
Protein-protein interaction databases
BioGRIDi | 110175, 81 interactors |
CORUMi | P48059 |
DIPi | DIP-40671N |
IntActi | P48059, 66 interactors |
MINTi | P48059 |
STRINGi | 9606.ENSP00000446121 |
Miscellaneous databases
RNActi | P48059, protein |
Structurei
Secondary structure
3D structure databases
SMRi | P48059 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | P48059 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 10 – 62 | LIM zinc-binding 1PROSITE-ProRule annotationAdd BLAST | 53 | |
Domaini | 71 – 121 | LIM zinc-binding 2PROSITE-ProRule annotationAdd BLAST | 51 | |
Domaini | 135 – 184 | LIM zinc-binding 3PROSITE-ProRule annotationAdd BLAST | 50 | |
Domaini | 193 – 243 | LIM zinc-binding 4PROSITE-ProRule annotationAdd BLAST | 51 | |
Domaini | 252 – 303 | LIM zinc-binding 5PROSITE-ProRule annotationAdd BLAST | 52 |
Keywords - Domaini
LIM domain, RepeatPhylogenomic databases
eggNOGi | KOG2272, Eukaryota |
GeneTreei | ENSGT00940000153518 |
HOGENOMi | CLU_001357_0_0_1 |
InParanoidi | P48059 |
OMAi | PFPDGIY |
OrthoDBi | 1593918at2759 |
PhylomeDBi | P48059 |
TreeFami | TF314113 |
Family and domain databases
InterProi | View protein in InterPro IPR017351, PINCH_1-like IPR001781, Znf_LIM |
PANTHERi | PTHR24210, PTHR24210, 1 hit |
Pfami | View protein in Pfam PF00412, LIM, 5 hits |
PIRSFi | PIRSF038003, PINCH, 1 hit |
SMARTi | View protein in SMART SM00132, LIM, 5 hits |
PROSITEi | View protein in PROSITE PS00478, LIM_DOMAIN_1, 4 hits PS50023, LIM_DOMAIN_2, 5 hits |
s (5+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 5 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 5 described isoforms and 5 potential isoforms that are computationally mapped.Show allAlign All
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
10 20 30 40 50
MANALASATC ERCKGGFAPA EKIVNSNGEL YHEQCFVCAQ CFQQFPEGLF
60 70 80 90 100
YEFEGRKYCE HDFQMLFAPC CHQCGEFIIG RVIKAMNNSW HPECFRCDLC
110 120 130 140 150
QEVLADIGFV KNAGRHLCRP CHNREKARGL GKYICQKCHA IIDEQPLIFK
160 170 180 190 200
NDPYHPDHFN CANCGKELTA DARELKGELY CLPCHDKMGV PICGACRRPI
210 220 230 240 250
EGRVVNAMGK QWHVEHFVCA KCEKPFLGHR HYERKGLAYC ETHYNQLFGD
260 270 280 290 300
VCFHCNRVIE GDVVSALNKA WCVNCFACST CNTKLTLKNK FVEFDMKPVC
310 320
KKCYEKFPLE LKKRLKKLAE TLGRK
Computationally mapped potential isoform sequencesi
There are 5 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketF8WC86 | F8WC86_HUMAN | LIM and senescent cell antigen-like... | LIMS1 | 117 | Annotation score: | ||
C9JF46 | C9JF46_HUMAN | LIM and senescent cell antigen-like... | LIMS1 | 176 | Annotation score: | ||
F8WB59 | F8WB59_HUMAN | LIM and senescent cell antigen-like... | LIMS1 | 55 | Annotation score: | ||
F8WE10 | F8WE10_HUMAN | LIM and senescent cell antigen-like... | LIMS1 | 100 | Annotation score: | ||
A0A0M3HER1 | A0A0M3HER1_HUMAN | LIM and senescent cell antigen-like... | LIMS1 | 209 | Annotation score: |
Experimental Info
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Sequence conflicti | 78 | I → T in AAH05341 (PubMed:15489334).Curated | 1 | |
Sequence conflicti | 262 | D → G in AAH05341 (PubMed:15489334).Curated | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_042672 | 1 | M → MLGVAAGMTHSNM in isoform 2. 1 Publication | 1 | |
Alternative sequenceiVSP_043210 | 1 | M → MAFSGRARPCIIPENEEIPR AALNTVHEANGTEDERAVSK LQRRHSDVKVYKEFCDFYAK FNM in isoform 3. 1 Publication | 1 | |
Alternative sequenceiVSP_043211 | 1 | M → MTCNM in isoform 4. Curated | 1 | |
Alternative sequenceiVSP_043212 | 1 | M → MTALQLKELSHSGLYRRRRD RPDSLRVNGLPEEELSNM in isoform 5. 1 Publication | 1 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U09284 mRNA Translation: AAA20086.2 AK296992 mRNA Translation: BAH12469.1 AK302411 mRNA Translation: BAH13699.1 AK304260 mRNA Translation: BAH14143.1 AK314217 mRNA Translation: BAG36891.1 AC010095 Genomic DNA Translation: AAY14983.1 AC012487 Genomic DNA No translation available. BC005341 mRNA Translation: AAH05341.1 |
CCDSi | CCDS2078.1 [P48059-1] CCDS54382.1 [P48059-2] CCDS54383.1 [P48059-4] CCDS54384.1 [P48059-5] CCDS54385.1 [P48059-3] |
PIRi | JC2324 |
RefSeqi | NP_001180411.1, NM_001193482.1 [P48059-4] NP_001180412.1, NM_001193483.2 [P48059-2] NP_001180413.1, NM_001193484.1 [P48059-5] NP_001180414.1, NM_001193485.2 [P48059-3] NP_001180417.1, NM_001193488.1 [P48059-1] NP_004978.2, NM_004987.5 [P48059-1] |
Genome annotation databases
Ensembli | ENST00000332345; ENSP00000331775; ENSG00000169756 [P48059-1] ENST00000338045; ENSP00000337598; ENSG00000169756 [P48059-3] ENST00000393310; ENSP00000376987; ENSG00000169756 [P48059-1] ENST00000409441; ENSP00000387264; ENSG00000169756 [P48059-5] ENST00000410093; ENSP00000386926; ENSG00000169756 [P48059-4] ENST00000544547; ENSP00000437912; ENSG00000169756 [P48059-2] |
GeneIDi | 3987 |
KEGGi | hsa:3987 |
UCSCi | uc002teg.4, human [P48059-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
Cross-referencesi
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | U09284 mRNA Translation: AAA20086.2 AK296992 mRNA Translation: BAH12469.1 AK302411 mRNA Translation: BAH13699.1 AK304260 mRNA Translation: BAH14143.1 AK314217 mRNA Translation: BAG36891.1 AC010095 Genomic DNA Translation: AAY14983.1 AC012487 Genomic DNA No translation available. BC005341 mRNA Translation: AAH05341.1 |
CCDSi | CCDS2078.1 [P48059-1] CCDS54382.1 [P48059-2] CCDS54383.1 [P48059-4] CCDS54384.1 [P48059-5] CCDS54385.1 [P48059-3] |
PIRi | JC2324 |
RefSeqi | NP_001180411.1, NM_001193482.1 [P48059-4] NP_001180412.1, NM_001193483.2 [P48059-2] NP_001180413.1, NM_001193484.1 [P48059-5] NP_001180414.1, NM_001193485.2 [P48059-3] NP_001180417.1, NM_001193488.1 [P48059-1] NP_004978.2, NM_004987.5 [P48059-1] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
1G47 | NMR | - | A | 1-70 | [»] | |
1NYP | NMR | - | A | 188-251 | [»] | |
1U5S | NMR | - | B | 188-251 | [»] | |
2COR | NMR | - | A | 125-190 | [»] | |
2D8X | NMR | - | A | 71-127 | [»] | |
2KBX | NMR | - | B | 1-70 | [»] | |
3F6Q | X-ray | 1.60 | B | 6-68 | [»] | |
4HI8 | X-ray | 1.20 | B | 6-68 | [»] | |
4HI9 | X-ray | 1.20 | B | 6-68 | [»] | |
6MIF | NMR | - | A | 249-325 | [»] | |
SMRi | P48059 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 110175, 81 interactors |
CORUMi | P48059 |
DIPi | DIP-40671N |
IntActi | P48059, 66 interactors |
MINTi | P48059 |
STRINGi | 9606.ENSP00000446121 |
PTM databases
iPTMneti | P48059 |
PhosphoSitePlusi | P48059 |
SwissPalmi | P48059 |
Genetic variation databases
BioMutai | LIMS1 |
DMDMi | 18266876 |
2D gel databases
OGPi | P48059 |
Proteomic databases
EPDi | P48059 |
jPOSTi | P48059 |
MassIVEi | P48059 |
MaxQBi | P48059 |
PaxDbi | P48059 |
PeptideAtlasi | P48059 |
PRIDEi | P48059 |
ProteomicsDBi | 55846 [P48059-1] 55847 [P48059-2] 55848 [P48059-3] 55849 [P48059-4] 55850 [P48059-5] |
Protocols and materials databases
Antibodypediai | 33091, 276 antibodies |
DNASUi | 3987 |
Genome annotation databases
Ensembli | ENST00000332345; ENSP00000331775; ENSG00000169756 [P48059-1] ENST00000338045; ENSP00000337598; ENSG00000169756 [P48059-3] ENST00000393310; ENSP00000376987; ENSG00000169756 [P48059-1] ENST00000409441; ENSP00000387264; ENSG00000169756 [P48059-5] ENST00000410093; ENSP00000386926; ENSG00000169756 [P48059-4] ENST00000544547; ENSP00000437912; ENSG00000169756 [P48059-2] |
GeneIDi | 3987 |
KEGGi | hsa:3987 |
UCSCi | uc002teg.4, human [P48059-1] |
Organism-specific databases
CTDi | 3987 |
DisGeNETi | 3987 |
GeneCardsi | LIMS1 |
HGNCi | HGNC:6616, LIMS1 |
HPAi | ENSG00000169756, Low tissue specificity |
MIMi | 602567, gene |
neXtProti | NX_P48059 |
OpenTargetsi | ENSG00000169756 |
PharmGKBi | PA30389 |
VEuPathDBi | HostDB:ENSG00000169756.16 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | KOG2272, Eukaryota |
GeneTreei | ENSGT00940000153518 |
HOGENOMi | CLU_001357_0_0_1 |
InParanoidi | P48059 |
OMAi | PFPDGIY |
OrthoDBi | 1593918at2759 |
PhylomeDBi | P48059 |
TreeFami | TF314113 |
Enzyme and pathway databases
PathwayCommonsi | P48059 |
Reactomei | R-HSA-446353, Cell-extracellular matrix interactions R-HSA-446388, Regulation of cytoskeletal remodeling and cell spreading by IPP complex components |
Miscellaneous databases
BioGRID-ORCSi | 3987, 226 hits in 992 CRISPR screens |
ChiTaRSi | LIMS1, human |
EvolutionaryTracei | P48059 |
GeneWikii | LIMS1 |
GenomeRNAii | 3987 |
Pharosi | P48059, Tbio |
PROi | PR:P48059 |
RNActi | P48059, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000169756, Expressed in endometrium and 222 other tissues |
ExpressionAtlasi | P48059, baseline and differential |
Genevisiblei | P48059, HS |
Family and domain databases
InterProi | View protein in InterPro IPR017351, PINCH_1-like IPR001781, Znf_LIM |
PANTHERi | PTHR24210, PTHR24210, 1 hit |
Pfami | View protein in Pfam PF00412, LIM, 5 hits |
PIRSFi | PIRSF038003, PINCH, 1 hit |
SMARTi | View protein in SMART SM00132, LIM, 5 hits |
PROSITEi | View protein in PROSITE PS00478, LIM_DOMAIN_1, 4 hits PS50023, LIM_DOMAIN_2, 5 hits |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | LIMS1_HUMAN | |
Accessioni | P48059Primary (citable) accession number: P48059 Secondary accession number(s): B2RAJ4 Q9BS44 | |
Entry historyi | Integrated into UniProtKB/Swiss-Prot: | February 1, 1996 |
Last sequence update: | January 23, 2007 | |
Last modified: | April 7, 2021 | |
This is version 208 of the entry and version 4 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. |
Miscellaneousi
Keywords - Technical termi
3D-structure, Direct protein sequencing, Reference proteomeDocuments
- Human chromosome 2
Human chromosome 2: entries, gene names and cross-references to MIM - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references