Human Gene MAP1LC3B (ENST00000268607.10

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Human Gene MAP1LC3B (ENST00000268607.10_4) from GENCODE V47lift37

Description: microtubule associated protein 1 light chain 3 beta (from RefSeq NM_022818.5)
Gencode Transcript: ENST00000268607.10_4
Gencode Gene: ENSG00000140941.14_8
Transcript (Including UTRs)
Position: hg19 chr16:87,425,942-87,438,380 Size: 12,439 Total Exon Count: 4 Strand: +
Coding Region
Position: hg19 chr16:87,426,034-87,436,703 Size: 10,670 Coding Exon Count: 4

Page Index	Sequence and Links	UniProtKB Comments	Primers	MalaCards	CTD
Gene Alleles	RNA-Seq Expression	Microarray Expression	RNA Structure	Protein Structure	Other Species
GO Annotations	mRNA Descriptions	Pathways	Other Names	Model Information	Methods

Data last updated at UCSC: 2024-08-22 23:36:26

Sequence and Links to Tools and Databases

Genomic Sequence (chr16:87,425,942-87,438,380)			mRNA (may differ from genome)		Protein (125 aa)
Gene Sorter	Genome Browser	Other Species FASTA	VisiGene	Gene interactions	Table Schema
AlphaFold	BioGPS	Ensembl	Entrez Gene	ExonPrimer	GeneCards
HGNC	Malacards	MGI	OMIM	PubMed	Reactome
UniProtKB	Wikipedia	BioGrid CRISPR DB

Comments and Description Text from UniProtKB


	ID: MLP3B_HUMAN DESCRIPTION: RecName: Full=Microtubule-associated proteins 1A/1B light chain 3B; AltName: Full=Autophagy-related protein LC3 B; AltName: Full=Autophagy-related ubiquitin-like modifier LC3 B; AltName: Full=MAP1 light chain 3-like protein 2; AltName: Full=MAP1A/MAP1B light chain 3 B; Short=MAP1A/MAP1B LC3 B; AltName: Full=Microtubule-associated protein 1 light chain 3 beta; Flags: Precursor; FUNCTION: Probably involved in formation of autophagosomal vacuoles (autophagosomes). SUBUNIT: 3 different light chains, LC1, LC2 and LC3, can associate with MAP1A and MAP1B proteins (By similarity). Interacts at microtubules with CABP1 (via EF-hands 1 and 2) but not with calmodulin. Interacts with FYCO1 (via C-terminus). Interacts with TP53INP1 and TP53INP2. Interacts with TBC1D25. INTERACTION: O75143:ATG13; NbExp=2; IntAct=EBI-373144, EBI-2798775; Q676U5:ATG16L1; NbExp=2; IntAct=EBI-373144, EBI-535909; Q2TAZ0:ATG2A; NbExp=2; IntAct=EBI-373144, EBI-2514077; Q9NT62:ATG3; NbExp=7; IntAct=EBI-373144, EBI-988094; Q9Y4P1:ATG4B; NbExp=6; IntAct=EBI-373144, EBI-712014; Q9H1Y0:ATG5; NbExp=2; IntAct=EBI-373144, EBI-1047414; O95352:ATG7; NbExp=7; IntAct=EBI-373144, EBI-987834; Q14677:CLINT1; NbExp=2; IntAct=EBI-373144, EBI-1171113; Q9BQS8:FYCO1; NbExp=7; IntAct=EBI-373144, EBI-2869338; O75323:GBAS; NbExp=4; IntAct=EBI-373144, EBI-307133; P40939:HADHA; NbExp=4; IntAct=EBI-373144, EBI-356720; O00410:IPO5; NbExp=2; IntAct=EBI-373144, EBI-356424; Q86V97:KBTBD6; NbExp=2; IntAct=EBI-373144, EBI-2514778; Q8WVZ9:KBTBD7; NbExp=3; IntAct=EBI-373144, EBI-473695; Q14596:NBR1; NbExp=8; IntAct=EBI-373144, EBI-742698; P97432:Nbr1 (xeno); NbExp=2; IntAct=EBI-373144, EBI-642554; Q8TD19:NEK9; NbExp=2; IntAct=EBI-373144, EBI-1044009; Q9NS23:RASSF1; NbExp=2; IntAct=EBI-373144, EBI-367363; Q8WWW0:RASSF5; NbExp=5; IntAct=EBI-373144, EBI-367390; Q14151:SAFB2; NbExp=3; IntAct=EBI-373144, EBI-352869; Q13501:SQSTM1; NbExp=12; IntAct=EBI-373144, EBI-307104; Q64337:Sqstm1 (xeno); NbExp=6; IntAct=EBI-373144, EBI-645025; O95210:STBD1; NbExp=2; IntAct=EBI-373144, EBI-2947137; Q13188:STK3; NbExp=5; IntAct=EBI-373144, EBI-992580; Q13043:STK4; NbExp=7; IntAct=EBI-373144, EBI-367376; Q8TC07:TBC1D15; NbExp=2; IntAct=EBI-373144, EBI-1048247; Q9UPU7:TBC1D2B; NbExp=3; IntAct=EBI-373144, EBI-2947180; Q9GZZ9:UBA5; NbExp=2; IntAct=EBI-373144, EBI-747805; O75385:ULK1; NbExp=2; IntAct=EBI-373144, EBI-908831; SUBCELLULAR LOCATION: Cytoplasm, cytoskeleton. Endomembrane system; Lipid-anchor. Cytoplasmic vesicle, autophagosome membrane; Lipid-anchor. Note=LC3-II binds to the autophagic membranes. TISSUE SPECIFICITY: Most abundant in heart, brain, skeletal muscle and testis. Little expression observed in liver. PTM: The precursor molecule is cleaved by APG4B/ATG4B to form LC3- I. This is activated by APG7L/ATG7, transferred to ATG3 and conjugated to phospholipid to form LC3-II. SIMILARITY: Belongs to the MAP1 LC3 family. CAUTION: PubMed:12740394 has shown that the protein is cleaved at Lys-122 but PubMed:15355958 has shown that the cleavage site is at Gly-120 as in other mammalian orthologs.

Primer design for this transcript

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MalaCards Disease Associations


	MalaCards Gene Search: MAP1LC3B Diseases sorted by gene-association score: spastic paraplegia 49, autosomal recessive (5), sporadic pheochromocytoma (5)

Comparative Toxicogenomics Database (CTD)


	The following chemicals interact with this gene C025946 3-methyladenine D020123 Sirolimus D001564 Benzo(a)pyrene D019256 Cadmium Chloride D002994 Clofibrate D003300 Copper D010634 Phenobarbital D013629 Tamoxifen D013749 Tetrachlorodibenzodioxin D014635 Valproic Acid more ... click here to view the complete list

Common Gene Haplotype Alleles


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RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)


	Highest median expression: 100.73 RPKM in Brain - Cerebellar Hemisphere Total median expression: 2093.19 RPKM View in GTEx track of Genome Browser View at GTEx portal View GTEx Body Map

Microarray Expression Data


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mRNA Secondary Structure of 3' and 5' UTRs

Region	Fold Energy	Bases	Energy/Base	Display As
5' UTR	-30.10	92	-0.327	Picture	PostScript	Text
3' UTR	-413.80	1677	-0.247	Picture	PostScript	Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

Protein Domain and Structure Information

InterPro Domains: Graphical view of domain structure
IPR004241 - Atg8_ubiquitin-like

Pfam Domains:
PF02991 - Autophagy protein Atg8 ubiquitin like
PF04110 - Ubiquitin-like autophagy protein Apg12

SCOP Domains:
54236 - Ubiquitin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1V49 - NMR MuPIT

2ZJD - X-ray MuPIT

ModBase Predicted Comparative 3D Structure on Q9GZQ8


Front	Top	Side

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Orthologous Genes in Other Species

Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.

Mouse	Rat	Zebrafish	D. melanogaster	C. elegans	S. cerevisiae
No ortholog	No ortholog	No ortholog	No ortholog	No ortholog	No ortholog
Gene Details	Gene Details
Gene Sorter	Gene Sorter
	RGD	Ensembl

Gene Ontology (GO) Annotations with Structured Vocabulary


	Molecular Function: GO:0005515 protein binding GO:0031625 ubiquitin protein ligase binding Biological Process: GO:0000045 autophagosome assembly GO:0000422 mitophagy GO:0006914 autophagy GO:0006995 cellular response to nitrogen starvation GO:0009267 cellular response to starvation GO:0016236 macroautophagy GO:0097352 autophagosome maturation Cellular Component: GO:0000421 autophagosome membrane GO:0005622 intracellular GO:0005737 cytoplasm GO:0005739 mitochondrion GO:0005776 autophagosome GO:0005829 cytosol GO:0005856 cytoskeleton GO:0005874 microtubule GO:0005930 axoneme GO:0012505 endomembrane system GO:0016020 membrane GO:0031090 organelle membrane GO:0031410 cytoplasmic vesicle

Descriptions from all associated GenBank mRNAs


	BC041874 - Homo sapiens microtubule-associated protein 1 light chain 3 beta, mRNA (cDNA clone MGC:43743 IMAGE:5271912), complete cds. AK290956 - Homo sapiens cDNA FLJ77661 complete cds, highly similar to Homo sapiens microtubule-associated protein 1 light chain 3 beta(MAP1LC3B), mRNA. BC048009 - Homo sapiens microtubule-associated protein 1 light chain 3 beta, mRNA (cDNA clone IMAGE:5311660). AK310224 - Homo sapiens cDNA, FLJ17266. AK310335 - Homo sapiens cDNA, FLJ17377. AF183417 - Homo sapiens microtubule-associated proteins 1A/1B light chain 3 mRNA, complete cds. AF087871 - Homo sapiens microtubule-associated proteins 1A and 1B light chain 3 subunit mRNA, complete cds. AK025556 - Homo sapiens cDNA: FLJ21903 fis, clone HEP03579. BC067797 - Homo sapiens microtubule-associated protein 1 light chain 3 beta, mRNA (cDNA clone MGC:87244 IMAGE:5276841), complete cds. BC018634 - Homo sapiens microtubule-associated protein 1 light chain 3 beta, mRNA (cDNA clone MGC:14924 IMAGE:3623259), complete cds. JD058199 - Sequence 39223 from Patent EP1572962. JD257534 - Sequence 238558 from Patent EP1572962. JN663879 - Homo sapiens MAP1LC3B-a (MAP1LC3B) mRNA, complete cds, alternatively spliced. AF303888 - Homo sapiens microtubule-associated proteins 1A/1B light chain 3 mRNA, complete cds. AM393561 - Synthetic construct Homo sapiens clone IMAGE:100002034 for hypothetical protein (MAP1LC3B gene). DQ896448 - Synthetic construct Homo sapiens clone IMAGE:100010908; FLH194382.01L; RZPDo839A1070D microtubule-associated protein 1 light chain 3 beta (MAP1LC3B) gene, encodes complete protein. DQ893152 - Synthetic construct clone IMAGE:100005782; FLH194386.01X; RZPDo839A1080D microtubule-associated protein 1 light chain 3 beta (MAP1LC3B) gene, encodes complete protein. AB528176 - Synthetic construct DNA, clone: pF1KE0126, Homo sapiens MAP1LC3B gene for microtubule-associated protein 1 light chain 3 beta, without stop codon, in Flexi system. AL834298 - Homo sapiens mRNA; cDNA DKFZp762B153 (from clone DKFZp762B153). KJ894858 - Synthetic construct Homo sapiens clone ccsbBroadEn_04252 MAP1LC3B gene, encodes complete protein. BC045759 - Homo sapiens microtubule-associated protein 1 light chain 3 beta, mRNA (cDNA clone MGC:48651 IMAGE:4828857), complete cds. JD309593 - Sequence 290617 from Patent EP1572962. JD082235 - Sequence 63259 from Patent EP1572962. AK024571 - Homo sapiens cDNA: FLJ20918 fis, clone ADSE00754. JD037945 - Sequence 18969 from Patent EP1572962. JD141229 - Sequence 122253 from Patent EP1572962. JD309663 - Sequence 290687 from Patent EP1572962. JD280319 - Sequence 261343 from Patent EP1572962. JD053130 - Sequence 34154 from Patent EP1572962. JD248078 - Sequence 229102 from Patent EP1572962. JD520067 - Sequence 501091 from Patent EP1572962. JD490905 - Sequence 471929 from Patent EP1572962. JD438105 - Sequence 419129 from Patent EP1572962. JD181308 - Sequence 162332 from Patent EP1572962. JD327454 - Sequence 308478 from Patent EP1572962. JD563436 - Sequence 544460 from Patent EP1572962. JD181401 - Sequence 162425 from Patent EP1572962. JD161189 - Sequence 142213 from Patent EP1572962.

Biochemical and Signaling Pathways


	Reactome (by CSHL, EBI, and GO) Protein Q9GZQ8 (Reactome details) participates in the following event(s): R-HSA-5205649 p62 links damaged mitochondria to LC3 R-HSA-8959573 Phosphorylated FUNDC1 links damaged mitochondria to LC3 R-HSA-5681987 LC3 is cleaved by ATG4 R-HSA-5682377 LC3 de-lipidation by ATG4 R-HSA-8854588 TBC1D25 (OATL1) binds ATG8 homologues R-HSA-5205663 LC3 binds the autophagosome membrane Atg5-Atg12 complex R-HSA-8959571 LC3 binds the autophagosome membrane Atg5-Atg12 complex R-HSA-5678490 ATG16L1 complex transfers LC3 from ATG3 to PE R-HSA-5683593 ATG7:ATG3:LC3 dissociates R-HSA-5682896 LC3:ATG7 dimer binds ATG3 R-HSA-5681981 ATG3 transfers LC3 from ATG7 to ATG3 R-HSA-5205685 Pink/Parkin Mediated Mitophagy R-HSA-8934903 Receptor Mediated Mitophagy R-HSA-1632852 Macroautophagy R-HSA-8854214 TBC/RABGAPs R-HSA-5205647 Mitophagy R-HSA-8953897 Cellular responses to external stimuli R-HSA-9007101 Rab regulation of trafficking R-HSA-199991 Membrane Trafficking R-HSA-5653656 Vesicle-mediated transport

Other Names for This Gene


	Alternate Gene Symbols: ENST00000268607.1, ENST00000268607.2, ENST00000268607.3, ENST00000268607.4, ENST00000268607.5, ENST00000268607.6, ENST00000268607.7, ENST00000268607.8, ENST00000268607.9, MAP1ALC3, MAP1LC3B , MLP3B_HUMAN, NM_022818, Q6NW02, Q9GZQ8, uc317inz.1, uc317inz.2 UCSC ID: ENST00000268607.10_4 RefSeq Accession: NM_022818.5 Protein: Q9GZQ8 (aka MLP3B_HUMAN or MP3B_HUMAN)

Gene Model Information


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Methods, Credits, and Use Restrictions


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