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LRRK2
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  • LRRK2
PROTEIN STRUCTURE
ANTIBODIES
AND
VALIDATION
Protein structures
GENERAL INFORMATIONi

General description of the gene and the encoded protein(s) using information from HGNC and Ensembl, as well as predictions made by the Human Protein Atlas project.

Gene namei

Official gene symbol, which is typically a short form of the gene name, according to HGNC.

LRRK2
Synonyms DKFZp434H2111, FLJ45829, PARK8, RIPK7, ROCO2
Gene descriptioni

Full gene name according to HGNC.

Leucine rich repeat kinase 2
Protein classi

Assigned HPA protein class(es) for the encoded protein(s).

Read more
Cancer-related genes
Disease related genes
Enzymes
Human disease related genes
Potential drug targets
Predicted locationi

All transcripts of all genes have been analyzed regarding the location(s) of corresponding protein based on prediction methods for signal peptides and transmembrane regions.

  • Genes with at least one transcript predicted to encode a secreted protein, according to prediction methods or to UniProt location data, have been further annotated and classified with the aim to determine if the corresponding protein(s) are secreted or actually retained in intracellular locations or membrane-attached.

  • Remaining genes, with no transcript predicted to encode a secreted protein, will be assigned the prediction-based location(s).

The annotated location overrules the predicted location, so that a gene encoding a predicted secreted protein that has been annotated as intracellular will have intracellular as the final location.

Read more
Intracellular
Protein evidence Evidence at protein level (all genes)
GENE INFORMATIONi

Gene information from Ensembl and Entrez, as well as links to available gene identifiers are displayed here. Information was retrieved from Ensembl if not indicated otherwise.

Chromosome 12
Cytoband q12
Chromosome location (bp) 40196744 - 40369285
Number of transcriptsi

Number of protein-coding transcripts from the gene as defined by Ensembl.

6
Ensembl ENSG00000188906 (version 103.38)
Entrez gene 120892
HGNC HGNC:18618
UniProt Q5S007 (UniProt - Evidence at protein level)
neXtProt NX_Q5S007
Antibodypedia LRRK2 antibodies


PROTEIN STRUCTUREi

The Structure section provides predicted structures from the Alphafold protein structure database and available experimental structures from Protein Data Bank (PDB).

In the Structure drop-down menu all experimental structures from PDB are available for selection and display. The structures are displayed using the NGL Viewer and can be zoomed-in and rotated either manually or by checking the Autorotate box. The Color scheme can be selected to show the residue index, chain name or confidence score (as B-factors and pLDDT score for experimental and predicted structures, respectively). The positions for available antigen sequences in the structure are shown if Antigens is turned to ON, and the Variants slider can be used to show the positions of clinical and population variants.https://github.com/nglviewer/ngl

Read more

Predicted


Description: Structure prediction from Alphafold project. Structure version 2

# Chains: 1      # Clinical variants: 14      # Population variants: 1354

Antigens:

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On

Variants:

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Clinical
Population

Color scheme:

Confidence
Residue index
Chain name

Autorotate:

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PROTEIN BROWSERi

The protein browser displays the antigen location on the target protein(s) and the features of the target protein. The tabs at the top of the protein view section can be used to switch between the different splice variants to which an antigen has been mapped.

At the top of the view, the position of the antigen (identified by the corresponding HPA identifier) is shown as a green bar. A yellow triangle on the bar indicates a <100% sequence identity to the protein target.

Below the antigens, the maximum percent sequence identity of the protein to all other proteins from other human genes is displayed, using a sliding window of 10 aa residues (HsID 10) or 50 aa residues (HsID 50). The region with the lowest possible identity is always selected for antigen design, with a maximum identity of 60% allowed for designing a single-target antigen (read more).

The curve in blue displays the predicted antigenicity i.e. the tendency for different regions of the protein to generate an immune response, with peak regions being predicted to be more antigenic.The curve shows average values based on a sliding window approach using an in-house propensity scale. (read more).

If a signal peptide is predicted by a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius (turquoise) and/or transmembrane regions (orange) are predicted by MDM, these are displayed.

Low complexity regions are shown in yellow and InterPro regions in green. Common (purple) and unique (grey) regions between different splice variants of the gene are also displayed (read more), and at the bottom of the protein view is the protein scale.
LRRK2-201
LRRK2-202
LRRK2-203
LRRK2-208
LRRK2-218
LRRK2-220


PROTEIN INFORMATIONi

The protein information section displays alternative protein-coding transcripts (splice variants) encoded by this gene according to the Ensembl database.

The ENSP identifier links to the Ensembl website protein summary, while the ENST identifier links to the Ensembl website transcript summary for the selected splice variant. The data in the UniProt column can be expanded to show links to all matching UniProt identifiers for this protein.

The protein classes assigned to this protein are shown if expanding the data in the protein class column. Parent protein classes are in bold font and subclasses are listed under the parent class.

The Gene Ontology terms assigned to this protein are listed if expanding the Gene ontology column. The length of the protein (amino acid residues according to Ensembl), molecular mass (kDalton), predicted signal peptide (according to a majority of the signal peptide predictors SPOCTOPUS, SignalP 4.0, and Phobius) and the number of predicted transmembrane region(s) (according to MDM) are also reported.
Splice variant UniProt Protein class Gene ontology Length & mass Signal peptide
(predicted)
Transmembrane regions
(predicted)
LRRK2-201
ENSP00000298910
ENST00000298910
Q5S007 [Direct mapping]
Leucine-rich repeat serine/threonine-protein kinase 2
Show all
Enzymes
   ENZYME proteins
   Transferases
   Kinases
   TKL Ser/Thr protein kinases
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Disease related genes
Potential drug targets
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Mapped to neXtProt
   neXtProt - Evidence at protein level
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0000139 [Golgi membrane]
GO:0000149 [SNARE binding]
GO:0000165 [MAPK cascade]
GO:0000166 [nucleotide binding]
GO:0000186 [activation of MAPKK activity]
GO:0000187 [activation of MAPK activity]
GO:0000287 [magnesium ion binding]
GO:0001933 [negative regulation of protein phosphorylation]
GO:0001934 [positive regulation of protein phosphorylation]
GO:0003779 [actin binding]
GO:0003924 [GTPase activity]
GO:0004672 [protein kinase activity]
GO:0004674 [protein serine/threonine kinase activity]
GO:0004708 [MAP kinase kinase activity]
GO:0004722 [protein serine/threonine phosphatase activity]
GO:0005096 [GTPase activator activity]
GO:0005515 [protein binding]
GO:0005524 [ATP binding]
GO:0005525 [GTP binding]
GO:0005615 [extracellular space]
GO:0005737 [cytoplasm]
GO:0005739 [mitochondrion]
GO:0005741 [mitochondrial outer membrane]
GO:0005743 [mitochondrial inner membrane]
GO:0005759 [mitochondrial matrix]
GO:0005764 [lysosome]
GO:0005768 [endosome]
GO:0005783 [endoplasmic reticulum]
GO:0005789 [endoplasmic reticulum membrane]
GO:0005794 [Golgi apparatus]
GO:0005798 [Golgi-associated vesicle]
GO:0005802 [trans-Golgi network]
GO:0005829 [cytosol]
GO:0005886 [plasma membrane]
GO:0005902 [microvillus]
GO:0006468 [protein phosphorylation]
GO:0006470 [protein dephosphorylation]
GO:0006606 [protein import into nucleus]
GO:0006897 [endocytosis]
GO:0006914 [autophagy]
GO:0006979 [response to oxidative stress]
GO:0007005 [mitochondrion organization]
GO:0007029 [endoplasmic reticulum organization]
GO:0007030 [Golgi organization]
GO:0007040 [lysosome organization]
GO:0007165 [signal transduction]
GO:0007283 [spermatogenesis]
GO:0007528 [neuromuscular junction development]
GO:0008017 [microtubule binding]
GO:0008021 [synaptic vesicle]
GO:0008340 [determination of adult lifespan]
GO:0009267 [cellular response to starvation]
GO:0010468 [regulation of gene expression]
GO:0010506 [regulation of autophagy]
GO:0010508 [positive regulation of autophagy]
GO:0010738 [regulation of protein kinase A signaling]
GO:0010955 [negative regulation of protein processing]
GO:0010977 [negative regulation of neuron projection development]
GO:0014041 [regulation of neuron maturation]
GO:0015631 [tubulin binding]
GO:0016020 [membrane]
GO:0016234 [inclusion body]
GO:0016242 [negative regulation of macroautophagy]
GO:0016301 [kinase activity]
GO:0016310 [phosphorylation]
GO:0016740 [transferase activity]
GO:0016787 [hydrolase activity]
GO:0017075 [syntaxin-1 binding]
GO:0018105 [peptidyl-serine phosphorylation]
GO:0018107 [peptidyl-threonine phosphorylation]
GO:0019722 [calcium-mediated signaling]
GO:0021756 [striatum development]
GO:0021772 [olfactory bulb development]
GO:0022028 [tangential migration from the subventricular zone to the olfactory bulb]
GO:0030054 [cell junction]
GO:0030154 [cell differentiation]
GO:0030159 [signaling receptor complex adaptor activity]
GO:0030276 [clathrin binding]
GO:0030424 [axon]
GO:0030425 [dendrite]
GO:0030426 [growth cone]
GO:0030672 [synaptic vesicle membrane]
GO:0031267 [small GTPase binding]
GO:0031398 [positive regulation of protein ubiquitination]
GO:0031410 [cytoplasmic vesicle]
GO:0031647 [regulation of protein stability]
GO:0031966 [mitochondrial membrane]
GO:0032091 [negative regulation of protein binding]
GO:0032092 [positive regulation of protein binding]
GO:0032436 [positive regulation of proteasomal ubiquitin-dependent protein catabolic process]
GO:0032473 [cytoplasmic side of mitochondrial outer membrane]
GO:0032839 [dendrite cytoplasm]
GO:0034211 [GTP-dependent protein kinase activity]
GO:0034260 [negative regulation of GTPase activity]
GO:0034599 [cellular response to oxidative stress]
GO:0034613 [cellular protein localization]
GO:0035556 [intracellular signal transduction]
GO:0035564 [regulation of kidney size]
GO:0035640 [exploration behavior]
GO:0035641 [locomotory exploration behavior]
GO:0035751 [regulation of lysosomal lumen pH]
GO:0036479 [peroxidase inhibitor activity]
GO:0039706 [co-receptor binding]
GO:0040012 [regulation of locomotion]
GO:0042391 [regulation of membrane potential]
GO:0042802 [identical protein binding]
GO:0042803 [protein homodimerization activity]
GO:0042995 [cell projection]
GO:0043005 [neuron projection]
GO:0043025 [neuronal cell body]
GO:0043068 [positive regulation of programmed cell death]
GO:0043195 [terminal bouton]
GO:0043204 [perikaryon]
GO:0043231 [intracellular membrane-bounded organelle]
GO:0043406 [positive regulation of MAP kinase activity]
GO:0043547 [positive regulation of GTPase activity]
GO:0044325 [ion channel binding]
GO:0044753 [amphisome]
GO:0044754 [autolysosome]
GO:0045121 [membrane raft]
GO:0045202 [synapse]
GO:0046039 [GTP metabolic process]
GO:0046777 [protein autophosphorylation]
GO:0048312 [intracellular distribution of mitochondria]
GO:0048812 [neuron projection morphogenesis]
GO:0051018 [protein kinase A binding]
GO:0051646 [mitochondrion localization]
GO:0051770 [positive regulation of nitric-oxide synthase biosynthetic process]
GO:0051900 [regulation of mitochondrial depolarization]
GO:0051966 [regulation of synaptic transmission, glutamatergic]
GO:0060070 [canonical Wnt signaling pathway]
GO:0060079 [excitatory postsynaptic potential]
GO:0060159 [regulation of dopamine receptor signaling pathway]
GO:0060161 [positive regulation of dopamine receptor signaling pathway]
GO:0060628 [regulation of ER to Golgi vesicle-mediated transport]
GO:0060828 [regulation of canonical Wnt signaling pathway]
GO:0061001 [regulation of dendritic spine morphogenesis]
GO:0070062 [extracellular exosome]
GO:0070585 [protein localization to mitochondrion]
GO:0070971 [endoplasmic reticulum exit site]
GO:0070973 [protein localization to endoplasmic reticulum exit site]
GO:0070997 [neuron death]
GO:0071287 [cellular response to manganese ion]
GO:0071407 [cellular response to organic cyclic compound]
GO:0072593 [reactive oxygen species metabolic process]
GO:0090140 [regulation of mitochondrial fission]
GO:0090263 [positive regulation of canonical Wnt signaling pathway]
GO:0090394 [negative regulation of excitatory postsynaptic potential]
GO:0097487 [multivesicular body, internal vesicle]
GO:0098794 [postsynapse]
GO:0098978 [glutamatergic synapse]
GO:0099400 [caveola neck]
GO:0099523 [presynaptic cytosol]
GO:0106310 []
GO:0106311 []
GO:0140058 [neuron projection arborization]
GO:1900242 [regulation of synaptic vesicle endocytosis]
GO:1900244 [positive regulation of synaptic vesicle endocytosis]
GO:1901214 [regulation of neuron death]
GO:1901215 [negative regulation of neuron death]
GO:1901727 [positive regulation of histone deacetylase activity]
GO:1902236 [negative regulation of endoplasmic reticulum stress-induced intrinsic apoptotic signaling pathway]
GO:1902499 [positive regulation of protein autoubiquitination]
GO:1902692 [regulation of neuroblast proliferation]
GO:1902803 [regulation of synaptic vesicle transport]
GO:1902823 [negative regulation of late endosome to lysosome transport]
GO:1902902 [negative regulation of autophagosome assembly]
GO:1903125 [negative regulation of thioredoxin peroxidase activity by peptidyl-threonine phosphorylation]
GO:1903206 [negative regulation of hydrogen peroxide-induced cell death]
GO:1903215 [negative regulation of protein targeting to mitochondrion]
GO:1903217 [negative regulation of protein processing involved in protein targeting to mitochondrion]
GO:1903351 [cellular response to dopamine]
GO:1903980 [positive regulation of microglial cell activation]
GO:1904713 [beta-catenin destruction complex binding]
GO:1904887 [Wnt signalosome assembly]
GO:1905279 [regulation of retrograde transport, endosome to Golgi]
GO:1905289 [regulation of CAMKK-AMPK signaling cascade]
GO:1990904 [ribonucleoprotein complex]
GO:1990909 [Wnt signalosome]
GO:2000172 [regulation of branching morphogenesis of a nerve]
GO:2000300 [regulation of synaptic vesicle exocytosis]
Show all
2527 aa
286.1 kDa
No 0
LRRK2-202
ENSP00000341930
ENST00000343742
E9PC85 [Direct mapping]
Leucine-rich repeat serine/threonine-protein kinase 2
Show all
   SCAMPI predicted membrane proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005515 [protein binding]
GO:0005525 [GTP binding]
Show all
1271 aa
143.1 kDa
No 0
LRRK2-203
ENSP00000398726
ENST00000416796
C9JBF0 [Direct mapping]
Leucine-rich repeat serine/threonine-protein kinase 2
Show all
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
521 aa
58.2 kDa
No 0
LRRK2-208
ENSP00000490200
ENST00000636518
A0A1B0GUQ3 [Direct mapping]
Leucine-rich repeat serine/threonine-protein kinase 2
Show all
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0005515 [protein binding]
Show all
454 aa
50.9 kDa
No 0
LRRK2-218
ENSP00000505335
ENST00000680790
   SCAMPI predicted membrane proteins
   SPOCTOPUS predicted membrane proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004672 [protein kinase activity]
GO:0005515 [protein binding]
GO:0005524 [ATP binding]
GO:0005525 [GTP binding]
GO:0006468 [protein phosphorylation]
Show all
2442 aa
276.6 kDa
No 0
LRRK2-220
ENSP00000505871
ENST00000681696
   SPOCTOPUS predicted membrane proteins
Predicted intracellular proteins
   Intracellular proteins predicted by MDM and MDSEC
Cancer-related genes
   Mutational cancer driver genes
Human disease related genes
   Nervous system diseases
   Neurodegenerative diseases
Protein evidence (Ezkurdia et al 2014)
Show all
GO:0004672 [protein kinase activity]
GO:0005515 [protein binding]
GO:0005524 [ATP binding]
GO:0006468 [protein phosphorylation]
Show all
1052 aa
119.5 kDa
No 0

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