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Protein

LIM domain and actin-binding protein 1

Gene

LIMA1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds to actin monomers and filaments. Increases the number and size of actin stress fibers and inhibits membrane ruffling. Inhibits actin filament depolymerization. Bundles actin filaments, delays filament nucleation and reduces formation of branched filaments.1 Publication

GO - Molecular functioni

  • actin filament binding Source: UniProtKB
  • actin monomer binding Source: UniProtKB
  • cadherin binding involved in cell-cell adhesion Source: BHF-UCL
  • zinc ion binding Source: InterPro

GO - Biological processi

  • actin filament bundle assembly Source: UniProtKB
  • negative regulation of actin filament depolymerization Source: UniProtKB
  • ruffle organization Source: UniProtKB
Complete GO annotation...

Keywords - Ligandi

Actin-binding, Metal-binding, Zinc

Enzyme and pathway databases

BioCyciZFISH:ENSG00000050405-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
LIM domain and actin-binding protein 1
Alternative name(s):
Epithelial protein lost in neoplasm
Gene namesi
Name:LIMA1
Synonyms:EPLIN, SREBP3
ORF Names:PP624
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 12

Organism-specific databases

HGNCiHGNC:24636. LIMA1.

Subcellular locationi

GO - Cellular componenti

  • actin cytoskeleton Source: LIFEdb
  • brush border Source: Ensembl
  • cell-cell adherens junction Source: BHF-UCL
  • cleavage furrow Source: UniProtKB
  • cytoplasm Source: HPA
  • focal adhesion Source: UniProtKB
  • plasma membrane Source: HPA
  • stress fiber Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cell junction, Cytoplasm, Cytoskeleton

Pathology & Biotechi

Organism-specific databases

DisGeNETi51474.
OpenTargetsiENSG00000050405.
PharmGKBiPA143485527.

Polymorphism and mutation databases

BioMutaiLIMA1.
DMDMi20138067.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000757301 – 759LIM domain and actin-binding protein 1Add BLAST759

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei4PhosphoserineCombined sources1
Modified residuei15PhosphoserineCombined sources1
Modified residuei55PhosphoserineCombined sources1
Modified residuei132PhosphoserineCombined sources1
Modified residuei225PhosphoserineCombined sources1
Modified residuei229PhosphotyrosineCombined sources1
Modified residuei230PhosphoserineBy similarity1
Modified residuei242PhosphoserineBy similarity1
Modified residuei263PhosphoserineCombined sources1
Modified residuei343PhosphoserineCombined sources1
Modified residuei350PhosphoserineCombined sources1
Modified residuei362PhosphoserineCombined sources1
Modified residuei365PhosphoserineCombined sources1
Modified residuei369PhosphoserineCombined sources1
Modified residuei374PhosphoserineCombined sources1
Modified residuei439N6-succinyllysineBy similarity1
Modified residuei490PhosphoserineCombined sources1
Modified residuei601PhosphoserineCombined sources1
Modified residuei604PhosphoserineCombined sources1
Modified residuei609PhosphoserineCombined sources1
Modified residuei617PhosphoserineCombined sources1
Modified residuei686PhosphoserineCombined sources1
Modified residuei692PhosphoserineCombined sources1
Modified residuei698PhosphoserineCombined sources1
Modified residuei726PhosphoserineCombined sources1
Modified residuei741PhosphoserineBy similarity1
Isoform Alpha (identifier: Q9UHB6-2)
Modified residuei1N-acetylmethionineCombined sources1
Isoform 5 (identifier: Q9UHB6-5)
Modified residuei1N-acetylmethionineCombined sources1
Modified residuei183PhosphoserineCombined sources1
Isoform 4 (identifier: Q9UHB6-4)
Modified residuei343PhosphoserineCombined sources1

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ9UHB6.
PaxDbiQ9UHB6.
PeptideAtlasiQ9UHB6.
PRIDEiQ9UHB6.

PTM databases

iPTMnetiQ9UHB6.
PhosphoSitePlusiQ9UHB6.

Expressioni

Tissue specificityi

Highly expressed in placenta, kidney, pancreas, prostate, ovary, spleen and heart. Also detected in lung, liver, brain, skeletal muscle, thymus, testis and intestine. Not detected in leukocytes. Isoform Beta expressed generally at very low levels. Isoform Alpha abundant in epithelial cells from mammary gland, prostate and in normal oral keratinocytes. Low levels in aortic endothelial cells and dermal fibroblasts. Not detectable in myocardium.

Inductioni

Down-regulated in some cancer cell lines. Isoform Alpha is induced by serum. Isoform Beta is constitutively expressed.1 Publication

Gene expression databases

BgeeiENSG00000050405.
ExpressionAtlasiQ9UHB6. baseline and differential.
GenevisibleiQ9UHB6. HS.

Organism-specific databases

HPAiHPA023871.
HPA052645.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
SVILO463853EBI-351479,EBI-6995105From a different organism.

GO - Molecular functioni

  • actin filament binding Source: UniProtKB
  • actin monomer binding Source: UniProtKB
  • cadherin binding involved in cell-cell adhesion Source: BHF-UCL

Protein-protein interaction databases

BioGridi119559. 199 interactors.
DIPiDIP-29633N.
IntActiQ9UHB6. 170 interactors.
MINTiMINT-1132272.
STRINGi9606.ENSP00000378400.

Structurei

Secondary structure

1759
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi384 – 387Combined sources4
Turni391 – 393Combined sources3
Beta strandi401 – 404Combined sources4
Beta strandi406 – 411Combined sources6
Turni412 – 414Combined sources3
Turni418 – 420Combined sources3
Turni426 – 428Combined sources3
Beta strandi432 – 434Combined sources3
Helixi439 – 445Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2D8YNMR-A381-457[»]
ProteinModelPortaliQ9UHB6.
SMRiQ9UHB6.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9UHB6.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini388 – 448LIM zinc-bindingPROSITE-ProRule annotationAdd BLAST61

Domaini

Sequence similaritiesi

Contains 1 LIM zinc-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

LIM domain

Phylogenomic databases

eggNOGiENOG410ITI7. Eukaryota.
ENOG41102B0. LUCA.
GeneTreeiENSGT00510000046839.
HOGENOMiHOG000059621.
HOVERGENiHBG051492.
InParanoidiQ9UHB6.
OMAiKMENCLG.
OrthoDBiEOG091G0043.
PhylomeDBiQ9UHB6.
TreeFamiTF350273.

Family and domain databases

Gene3Di2.10.110.10. 1 hit.
InterProiIPR028740. EPLIN.
IPR001781. Znf_LIM.
[Graphical view]
PANTHERiPTHR24206:SF34. PTHR24206:SF34. 2 hits.
PfamiPF00412. LIM. 1 hit.
[Graphical view]
SMARTiSM00132. LIM. 1 hit.
[Graphical view]
PROSITEiPS00478. LIM_DOMAIN_1. 1 hit.
PS50023. LIM_DOMAIN_2. 1 hit.
[Graphical view]

Sequences (5)i

Sequence statusi: Complete.

This entry describes 5 isoformsi produced by alternative promoter usage and alternative splicing. AlignAdd to basket

Isoform Beta (identifier: Q9UHB6-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MESSPFNRRQ WTSLSLRVTA KELSLVNKNK SSAIVEIFSK YQKAAEETNM
60 70 80 90 100
EKKRSNTENL SQHFRKGTLT VLKKKWENPG LGAESHTDSL RNSSTEIRHR
110 120 130 140 150
ADHPPAEVTS HAASGAKADQ EEQIHPRSRL RSPPEALVQG RYPHIKDGED
160 170 180 190 200
LKDHSTESKK MENCLGESRH EVEKSEISEN TDASGKIEKY NVPLNRLKMM
210 220 230 240 250
FEKGEPTQTK ILRAQSRSAS GRKISENSYS LDDLEIGPGQ LSSSTFDSEK
260 270 280 290 300
NESRRNLELP RLSETSIKDR MAKYQAAVSK QSSSTNYTNE LKASGGEIKI
310 320 330 340 350
HKMEQKENVP PGPEVCITHQ EGEKISANEN SLAVRSTPAE DDSRDSQVKS
360 370 380 390 400
EVQQPVHPKP LSPDSRASSL SESSPPKAMK KFQAPARETC VECQKTVYPM
410 420 430 440 450
ERLLANQQVF HISCFRCSYC NNKLSLGTYA SLHGRIYCKP HFNQLFKSKG
460 470 480 490 500
NYDEGFGHRP HKDLWASKNE NEEILERPAQ LANARETPHS PGVEDAPIAK
510 520 530 540 550
VGVLAASMEA KASSQQEKED KPAETKKLRI AWPPPTELGS SGSALEEGIK
560 570 580 590 600
MSKPKWPPED EISKPEVPED VDLDLKKLRR SSSLKERSRP FTVAASFQST
610 620 630 640 650
SVKSPKTVSP PIRKGWSMSE QSEESVGGRV AERKQVENAK ASKKNGNVGK
660 670 680 690 700
TTWQNKESKG ETGKRSKEGH SLEMENENLV ENGADSDEDD NSFLKQQSPQ
710 720 730 740 750
EPKSLNWSSF VDNTFAEEFT TQNQKSQDVE LWEGEVVKEL SVEEQIKRNR

YYDEDEDEE
Note: Produced by alternative promoter usage.
Length:759
Mass (Da):85,226
Last modified:May 1, 2000 - v1
Checksum:i996378AFD3B003D5
GO
Isoform Alpha (identifier: Q9UHB6-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-160: Missing.

Note: Produced by alternative promoter usage.Combined sources
Show »
Length:599
Mass (Da):67,119
Checksum:iDE0AE1D7A916BE30
GO
Isoform 3 (identifier: Q9UHB6-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-302: Missing.

Note: Produced by alternative splicing of isoform Beta.
Show »
Length:457
Mass (Da):51,219
Checksum:iDD730BA1D2FB8E2E
GO
Isoform 4 (identifier: Q9UHB6-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     344-344: R → PG

Note: Produced by alternative splicing.Combined sources
Show »
Length:760
Mass (Da):85,224
Checksum:i5FD64F6E2ECEFAE2
GO
Isoform 5 (identifier: Q9UHB6-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-160: Missing.
     344-344: R → PG

Note: No experimental confirmation available.Combined sources
Show »
Length:600
Mass (Da):67,117
Checksum:iDAE126F756B45C5F
GO

Sequence cautioni

The sequence AAG17267 differs from that shown. Reason: Frameshift at positions 365 and 662.Curated
The sequence BAA91120 differs from that shown. Reason: Frameshift at position 697.Curated
The sequence BAD92749 differs from that shown. Reason: Erroneous initiation. Translation N-terminally shortened.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti381Missing in BAA90914 (PubMed:14702039).Curated1
Sequence conflicti381Missing in AAH01247 (PubMed:15489334).Curated1
Sequence conflicti415F → L in AAG17267 (PubMed:15498874).Curated1
Sequence conflicti463D → G in BAA90914 (PubMed:14702039).Curated1
Sequence conflicti491P → Q in AAF67491 (PubMed:10931946).Curated1
Sequence conflicti520 – 521DK → NR in AAF67491 (PubMed:10931946).Curated2

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0031171 – 302Missing in isoform 3. 2 PublicationsAdd BLAST302
Alternative sequenceiVSP_0031161 – 160Missing in isoform Alpha and isoform 5. 2 PublicationsAdd BLAST160
Alternative sequenceiVSP_040136344R → PG in isoform 4 and isoform 5. 2 Publications1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF198454 mRNA. Translation: AAF23755.1.
AF198455 mRNA. Translation: AAF23756.1.
AF157325 mRNA. Translation: AAF67491.1.
AL136911 mRNA. Translation: CAB66845.1.
AK000372 mRNA. Translation: BAA91120.1. Frameshift.
AK000335 mRNA. Translation: BAA91092.1.
AK023649 mRNA. Translation: BAB14625.1.
AK000057 mRNA. Translation: BAA90914.1.
AK314447 mRNA. Translation: BAG37056.1.
AB209512 mRNA. Translation: BAD92749.1. Different initiation.
CH471111 Genomic DNA. Translation: EAW58135.1.
BC001247 mRNA. Translation: AAH01247.2.
BC010664 mRNA. Translation: AAH10664.1.
BC110815 mRNA. Translation: AAI10816.1.
BC136763 mRNA. Translation: AAI36764.1.
AF218025 mRNA. Translation: AAG17267.1. Frameshift.
CCDSiCCDS44877.1. [Q9UHB6-4]
CCDS55826.1. [Q9UHB6-5]
CCDS58230.1. [Q9UHB6-3]
CCDS8802.1. [Q9UHB6-1]
RefSeqiNP_001107018.1. NM_001113546.1. [Q9UHB6-4]
NP_001107019.1. NM_001113547.1. [Q9UHB6-5]
NP_001230704.1. NM_001243775.1. [Q9UHB6-3]
NP_057441.1. NM_016357.4. [Q9UHB6-1]
XP_011536757.1. XM_011538455.2. [Q9UHB6-4]
XP_016874919.1. XM_017019430.1. [Q9UHB6-3]
UniGeneiHs.525419.

Genome annotation databases

EnsembliENST00000341247; ENSP00000340184; ENSG00000050405. [Q9UHB6-1]
ENST00000394943; ENSP00000378400; ENSG00000050405. [Q9UHB6-4]
ENST00000547825; ENSP00000448706; ENSG00000050405. [Q9UHB6-3]
ENST00000552783; ENSP00000448779; ENSG00000050405. [Q9UHB6-5]
ENST00000552823; ENSP00000450266; ENSG00000050405. [Q9UHB6-2]
GeneIDi51474.
KEGGihsa:51474.
UCSCiuc001rwg.5. human. [Q9UHB6-1]

Keywords - Coding sequence diversityi

Alternative promoter usage, Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF198454 mRNA. Translation: AAF23755.1.
AF198455 mRNA. Translation: AAF23756.1.
AF157325 mRNA. Translation: AAF67491.1.
AL136911 mRNA. Translation: CAB66845.1.
AK000372 mRNA. Translation: BAA91120.1. Frameshift.
AK000335 mRNA. Translation: BAA91092.1.
AK023649 mRNA. Translation: BAB14625.1.
AK000057 mRNA. Translation: BAA90914.1.
AK314447 mRNA. Translation: BAG37056.1.
AB209512 mRNA. Translation: BAD92749.1. Different initiation.
CH471111 Genomic DNA. Translation: EAW58135.1.
BC001247 mRNA. Translation: AAH01247.2.
BC010664 mRNA. Translation: AAH10664.1.
BC110815 mRNA. Translation: AAI10816.1.
BC136763 mRNA. Translation: AAI36764.1.
AF218025 mRNA. Translation: AAG17267.1. Frameshift.
CCDSiCCDS44877.1. [Q9UHB6-4]
CCDS55826.1. [Q9UHB6-5]
CCDS58230.1. [Q9UHB6-3]
CCDS8802.1. [Q9UHB6-1]
RefSeqiNP_001107018.1. NM_001113546.1. [Q9UHB6-4]
NP_001107019.1. NM_001113547.1. [Q9UHB6-5]
NP_001230704.1. NM_001243775.1. [Q9UHB6-3]
NP_057441.1. NM_016357.4. [Q9UHB6-1]
XP_011536757.1. XM_011538455.2. [Q9UHB6-4]
XP_016874919.1. XM_017019430.1. [Q9UHB6-3]
UniGeneiHs.525419.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2D8YNMR-A381-457[»]
ProteinModelPortaliQ9UHB6.
SMRiQ9UHB6.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi119559. 199 interactors.
DIPiDIP-29633N.
IntActiQ9UHB6. 170 interactors.
MINTiMINT-1132272.
STRINGi9606.ENSP00000378400.

PTM databases

iPTMnetiQ9UHB6.
PhosphoSitePlusiQ9UHB6.

Polymorphism and mutation databases

BioMutaiLIMA1.
DMDMi20138067.

Proteomic databases

EPDiQ9UHB6.
PaxDbiQ9UHB6.
PeptideAtlasiQ9UHB6.
PRIDEiQ9UHB6.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000341247; ENSP00000340184; ENSG00000050405. [Q9UHB6-1]
ENST00000394943; ENSP00000378400; ENSG00000050405. [Q9UHB6-4]
ENST00000547825; ENSP00000448706; ENSG00000050405. [Q9UHB6-3]
ENST00000552783; ENSP00000448779; ENSG00000050405. [Q9UHB6-5]
ENST00000552823; ENSP00000450266; ENSG00000050405. [Q9UHB6-2]
GeneIDi51474.
KEGGihsa:51474.
UCSCiuc001rwg.5. human. [Q9UHB6-1]

Organism-specific databases

CTDi51474.
DisGeNETi51474.
GeneCardsiLIMA1.
H-InvDBHIX0171649.
HGNCiHGNC:24636. LIMA1.
HPAiHPA023871.
HPA052645.
MIMi608364. gene.
neXtProtiNX_Q9UHB6.
OpenTargetsiENSG00000050405.
PharmGKBiPA143485527.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410ITI7. Eukaryota.
ENOG41102B0. LUCA.
GeneTreeiENSGT00510000046839.
HOGENOMiHOG000059621.
HOVERGENiHBG051492.
InParanoidiQ9UHB6.
OMAiKMENCLG.
OrthoDBiEOG091G0043.
PhylomeDBiQ9UHB6.
TreeFamiTF350273.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000050405-MONOMER.

Miscellaneous databases

ChiTaRSiLIMA1. human.
EvolutionaryTraceiQ9UHB6.
GeneWikiiLIMA1.
GenomeRNAii51474.
PROiQ9UHB6.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000050405.
ExpressionAtlasiQ9UHB6. baseline and differential.
GenevisibleiQ9UHB6. HS.

Family and domain databases

Gene3Di2.10.110.10. 1 hit.
InterProiIPR028740. EPLIN.
IPR001781. Znf_LIM.
[Graphical view]
PANTHERiPTHR24206:SF34. PTHR24206:SF34. 2 hits.
PfamiPF00412. LIM. 1 hit.
[Graphical view]
SMARTiSM00132. LIM. 1 hit.
[Graphical view]
PROSITEiPS00478. LIM_DOMAIN_1. 1 hit.
PS50023. LIM_DOMAIN_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiLIMA1_HUMAN
AccessioniPrimary (citable) accession number: Q9UHB6
Secondary accession number(s): B2RB09
, Q2TAN7, Q59FE8, Q9BVF2, Q9H8J1, Q9HBN5, Q9NX96, Q9NXC3, Q9NXU6, Q9P0H8, Q9UHB5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 5, 2002
Last sequence update: May 1, 2000
Last modified: November 2, 2016
This is version 162 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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, Complete proteome, Reference proteome

Documents

  1. Human chromosome 12
    Human chromosome 12: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.