Q38SD2 (LRRK1_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 29, 2013.
Version 88.
History...
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Interactions·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: Leucine-rich repeat serine/threonine-protein kinase 1 EC=2.7.11.1 | ||||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||
| Taxonomic identifier | 9606 [NCBI] | ||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 2015 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Catalytic activity | ATP + a protein = ADP + a phosphoprotein. Ref.3 |
| Cofactor | Magnesium or manganese. Ref.3 |
| Enzyme regulation | Binding of GTP stimulates kinase activity. Ref.3 |
| Subunit structure | Homodimer. Ref.6 |
| Subcellular location | |
| Sequence similarities | Belongs to the protein kinase superfamily. TKL Ser/Thr protein kinase family. ROCO subfamily. Contains 4 ANK repeats. Contains 13 LRR (leucine-rich) repeats. Contains 1 protein kinase domain. Contains 1 Roc domain. |
| Sequence caution | The sequence AAY67799.1 differs from that shown. Reason: The cDNA contains a duplication of exon 3. The sequence BAB15547.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. The sequence BAC85472.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Cytoplasm |
| Coding sequence diversity | Alternative splicing Polymorphism |
| Domain | ANK repeat Leucine-rich repeat Repeat |
| Ligand | ATP-binding GTP-binding Magnesium Manganese Metal-binding Nucleotide-binding |
| Molecular function | Kinase Serine/threonine-protein kinase Transferase |
| Technical term | Complete proteome Reference proteome |
| Gene Ontology (GO) | |
| Biological_process | small GTPase mediated signal transduction Inferred from electronic annotation. Source: InterPro |
| Cellular_component | mitochondrion Inferred from direct assay. Source: HPA |
| Molecular_function | ATP binding Inferred from electronic annotation. Source: UniProtKB-KW GTP bindingInferred from electronic annotation. Source: UniProtKB-KW metal ion bindingInferred from electronic annotation. Source: UniProtKB-KW protein serine/threonine kinase activityInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| itself | 3 | EBI-1050422,EBI-1050422 | ||
| DAPK1 | P53355 | 2 | EBI-1050422,EBI-358616 | |
| LRRK2 | Q5S007 | 5 | EBI-1050422,EBI-5323863 |
Alternative products
| This entry describes 2 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 Ref.6 (identifier: Q38SD2-1) 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. | ||||||
| Note: No experimental confirmation available. | ||||||
| Isoform 2 Ref.2 (identifier: Q38SD2-2) The sequence of this isoform differs from the canonical sequence as follows: 255-264: ALRVKWSHLR → VSSHCLWSVF 265-2015: Missing. | ||||||
| Note: No experimental confirmation available. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 2015 | 2015 | Leucine-rich repeat serine/threonine-protein kinase 1 | PRO_0000233377 | |||||
Regions | |||||||||
| Repeat | 86 – 116 | 31 | ANK 1 | ||||||
| Repeat | 119 – 148 | 30 | ANK 2 | ||||||
| Repeat | 152 – 182 | 31 | ANK 3 | ||||||
| Repeat | 193 – 222 | 30 | ANK 4 | ||||||
| Repeat | 279 – 300 | 22 | LRR 1 | ||||||
| Repeat | 303 – 324 | 22 | LRR 2 | ||||||
| Repeat | 330 – 351 | 22 | LRR 3 | ||||||
| Repeat | 353 – 374 | 22 | LRR 4 | ||||||
| Repeat | 381 – 402 | 22 | LRR 5 | ||||||
| Repeat | 405 – 426 | 22 | LRR 6 | ||||||
| Repeat | 427 – 447 | 21 | LRR 7 | ||||||
| Repeat | 451 – 472 | 22 | LRR 8 | ||||||
| Repeat | 474 – 495 | 22 | LRR 9 | ||||||
| Repeat | 498 – 519 | 22 | LRR 10 | ||||||
| Repeat | 549 – 570 | 22 | LRR 11 | ||||||
| Repeat | 572 – 594 | 23 | LRR 12 | ||||||
| Repeat | 596 – 617 | 22 | LRR 13 | ||||||
| Domain | 632 – 826 | 195 | Roc | ||||||
| Domain | 1242 – 1525 | 284 | Protein kinase | ||||||
| Nucleotide binding | 1248 – 1256 | 9 | ATP By similarity | ||||||
Sites | |||||||||
| Active site | 1386 | 1 | Proton acceptor By similarity | ||||||
| Binding site | 1270 | 1 | ATP By similarity | ||||||
Natural variations | |||||||||
| Alternative sequence | 255 – 264 | 10 | ALRVKWSHLR → VSSHCLWSVF in isoform 2. | VSP_040119 | |||||
| Alternative sequence | 265 – 2015 | 1751 | Missing in isoform 2. | VSP_040120 | |||||
| Natural variant | 1803 | 1 | A → T. Ref.7 | VAR_040674 | |||||
| Natural variant | 1824 | 1 | L → F. Ref.7 | VAR_040675 | |||||
| Natural variant | 1847 | 1 | S → N. Ref.7 | VAR_040676 | |||||
| Natural variant | 1927 | 1 | D → G. Ref.7 | VAR_040677 | |||||
Experimental info | |||||||||
| Mutagenesis | 651 | 1 | K → A: Loss of GTP/GDP-binding. Ref.3 | ||||||
| Mutagenesis | 746 | 1 | K → G: No effect on GTP-binding but reduction in subsequent stimulation of kinase activity. Ref.3 | ||||||
| Mutagenesis | 1022 | 1 | F → C: No effect on GTP-binding but loss of subsequent stimulation of kinase activity. Ref.3 | ||||||
| Mutagenesis | 1270 | 1 | K → W: Loss of autophosphorylation. Ref.3 | ||||||
| Mutagenesis | 1412 | 1 | I → T: No effect on GTP-binding but reduction in subsequent stimulation of kinase activity. Ref.3 | ||||||
| Sequence conflict | 203 | 1 | K → R in BAC85472. Ref.4 | ||||||
| Sequence conflict | 1938 | 1 | G → E in AAH66655. Ref.2 | ||||||
| Sequence conflict | 1938 | 1 | G → E in BAB47419. Ref.5 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Analysis of the DNA sequence and duplication history of human chromosome 15." Zody M.C., Garber M., Sharpe T., Young S.K., Rowen L., O'Neill K., Whittaker C.A., Kamal M., Chang J.L., Cuomo C.A., Dewar K., FitzGerald M.G., Kodira C.D., Madan A., Qin S., Yang X., Abbasi N., Abouelleil A. Nusbaum C.Nature 440:671-675(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [2] | "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2), NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1576-2015 (ISOFORM 1). Tissue: Pancreas and Skin. |
| [3] | "LRRK1 protein kinase activity is stimulated upon binding of GTP to its Roc domain." Korr D., Toschi L., Donner P., Pohlenz H.-P., Kreft B., Weiss B. Cell. Signal. 18:910-920(2006) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 28-2015 (ISOFORM 1), FUNCTION, ENZYME REGULATION, SUBCELLULAR LOCATION, AUTOPHOSPHORYLATION, GTP-BINDING, MUTAGENESIS OF LYS-651; LYS-746; PHE-1022; LYS-1270 AND ILE-1412. |
| [4] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 145-364 AND 905-2015 (ISOFORM 1). Tissue: Lung, Macrophage and Spleen. |
| [5] | "Prediction of the coding sequences of unidentified human genes. XX. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro." Nagase T., Nakayama M., Nakajima D., Kikuno R., Ohara O. DNA Res. 8:85-95(2001) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 646-2015 (ISOFORM 1). Tissue: Brain. |
| [6] | "Biochemical characterization of highly purified leucine-rich repeat kinases 1 and 2 demonstrates formation of homodimers." Civiero L., Vancraenenbroeck R., Belluzzi E., Beilina A., Lobbestael E., Reyniers L., Gao F., Micetic I., De Maeyer M., Bubacco L., Baekelandt V., Cookson M.R., Greggio E., Taymans J.M. PLoS ONE 7:E43472-E43472(2012) [PubMed] [Europe PMC] [Abstract] Cited for: SUBUNIT, LACK OF AUTOPHOSPHORYLATION. |
| [7] | "Patterns of somatic mutation in human cancer genomes." Greenman C., Stephens P., Smith R., Dalgliesh G.L., Hunter C., Bignell G., Davies H., Teague J., Butler A., Stevens C., Edkins S., O'Meara S., Vastrik I., Schmidt E.E., Avis T., Barthorpe S., Bhamra G., Buck G. Stratton M.R.Nature 446:153-158(2007) [PubMed] [Europe PMC] [Abstract] Cited for: VARIANTS [LARGE SCALE ANALYSIS] THR-1803; PHE-1824; ASN-1847 AND GLY-1927. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| EMBL GenBank DDBJ | AC090907 Genomic DNA. No translation available. BC066655 mRNA. Translation: AAH66655.1. BC068080 mRNA. Translation: AAH68080.1. DQ013130 mRNA. Translation: AAY67799.1. Sequence problems. AK026772 mRNA. Translation: BAB15547.1. Different initiation. AK130975 mRNA. Translation: BAC85472.1. Different initiation. AK131075 mRNA. Translation: BAC85125.1. AB058693 mRNA. Translation: BAB47419.1. |
| IPI | IPI00747813. IPI00748762. |
| RefSeq | NP_078928.3. NM_024652.3. |
| UniGene | Hs.407918. |
3D structure databases | |
| ProteinModelPortal | Q38SD2. |
| ModBase | Search... |
Protein-protein interaction databases | |
| IntAct | Q38SD2. 25 interactions. |
| STRING | 9606.ENSP00000373600. |
PTM databases | |
| PhosphoSite | Q38SD2. |
Polymorphism databases | |
| DMDM | 94717653. |
Proteomic databases | |
| PaxDb | Q38SD2. |
| PRIDE | Q38SD2. |
Protocols and materials databases | |
| DNASU | 79705. |
| StructuralBiologyKnowledgebase | Search... |
Genome annotation databases | |
| Ensembl | ENST00000388948; ENSP00000373600; ENSG00000154237. ENST00000532029; ENSP00000433268; ENSG00000154237. |
| GeneID | 79705. |
| KEGG | hsa:79705. |
| UCSC | uc002bwq.1. human. uc002bwr.3. human. |
Organism-specific databases | |
| CTD | 79705. |
| GeneCards | GC15P101459. |
| H-InvDB | HIX0012627. |
| HGNC | HGNC:18608. LRRK1. |
| HPA | HPA010537. |
| MIM | 610986. gene. |
| neXtProt | NX_Q38SD2. |
| PharmGKB | PA134892363. |
| HUGE | Search... |
| GenAtlas | Search... |
Phylogenomic databases | |
| eggNOG | COG1100. |
| HOVERGEN | HBG081936. |
| KO | K08843. |
| OMA | FEEENAT. |
Enzyme and pathway databases | |
| SignaLink | Q38SD2. |
Gene expression databases | |
| ArrayExpress | Q38SD2. |
| Bgee | Q38SD2. |
| CleanEx | HS_LRRK1. |
| Genevestigator | Q38SD2. |
| GermOnline | ENSG00000154237. Homo sapiens. |
Family and domain databases | |
| Gene3D | 1.25.40.20. 1 hit. |
| InterPro | IPR002110. Ankyrin_rpt. IPR020683. Ankyrin_rpt-contain_dom. IPR011009. Kinase-like_dom. IPR001611. Leu-rich_rpt. IPR003591. Leu-rich_rpt_typical-subtyp. IPR013684. MIRO-like. IPR027417. P-loop_NTPase. IPR000719. Prot_kinase_cat_dom. IPR020859. ROC_GTPase. IPR017986. WD40_repeat_dom. [Graphical view] |
| Pfam | PF12796. Ank_2. 1 hit. PF00560. LRR_1. 1 hit. PF08477. Miro. 1 hit. PF00069. Pkinase. 1 hit. [Graphical view] |
| SMART | SM00248. ANK. 3 hits. SM00369. LRR_TYP. 1 hit. [Graphical view] |
| SUPFAM | SSF48403. ANK. 1 hit. SSF56112. Kinase_like. 1 hit. SSF52540. SSF52540. 1 hit. SSF50978. WD40_like. 1 hit. |
| PROSITE | PS50297. ANK_REP_REGION. 1 hit. PS50088. ANK_REPEAT. False negative. PS51450. LRR. 11 hits. PS00107. PROTEIN_KINASE_ATP. False negative. PS50011. PROTEIN_KINASE_DOM. 1 hit. PS00108. PROTEIN_KINASE_ST. False negative. PS51424. ROC. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other | |
| GenomeRNAi | 79705. |
| NextBio | 69015. |
| SOURCE | Search... |
Entry information
| Entry name | LRRK1_HUMAN | ||||||||
| Accession | Primary (citable) accession number: Q38SD2 Secondary accession number(s): Q6NVH5 Q9H5S3 | ||||||||
| Entry history |
| ||||||||
| Entry status | 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. | ||||||||
Relevant documents
| Human and mouse protein kinases Human and mouse protein kinases: classification and index |
| Human chromosome 15 Human chromosome 15: entries, gene names and cross-references to MIM |
| Human entries with polymorphisms or disease mutations List of human entries with polymorphisms or disease mutations |
| Human polymorphisms and disease mutations Index of human polymorphisms and disease mutations |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| SIMILARITY comments Index of protein domains and families |

Clusters with
