Microtubule-associated proteins 1A/1B light chain 3B precursor

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Alternative products

Sequence annotation (Features)

Sequences

References

Cross-references

Entry information

Relevant documents

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Alternative products

Sequence annotation (Features)

Sequences

References

Cross-references

Entry information

Relevant documents

Molecule processing

Amino acid modifications

Natural variations

Experimental info

Secondary structure

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Preferred order of sections

Molecule processing

Amino acid modifications

Natural variations

Experimental info

Secondary structure

Sequence databases

3D structure databases

Protein-protein interaction databases

PTM databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

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Q62625 (MLP3B_RAT) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 104. History...

Clusters with 100%, 90%, 50% identity |

Documents (2) |

Third-party data

text xml rdf/xml gff fasta

Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Protein names

Recommended name:
Microtubule-associated proteins 1A/1B light chain 3B

Alternative name(s):
Autophagy-related protein LC3 B
Autophagy-related ubiquitin-like modifier LC3 B
MAP1 light chain 3-like protein 2
MAP1A/MAP1B light chain 3 B
Short name=MAP1A/MAP1B LC3 B
Microtubule-associated protein 1 light chain 3 beta

Gene names

Name:	Map1lc3b
Synonyms:	Map1alc3, Map1lc3

Organism

Rattus norvegicus (Rat) [Reference proteome]

Taxonomic identifier

10116 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Rattus

Sequence length	142 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

Function	Probably involved in formation of autophagosomal vacuoles (autophagosomes).
Subunit structure	3 different light chains, LC1, LC2 and LC3, can associate with MAP1A and MAP1B proteins. Interacts at microtubules with CABP1 (via EF-hands 1 and 2) but not with calmodulin. A calcium-dependent binding site is located at the C-terminus while a calcium-independent binding site is located at the N-terminus. Interacts with FYCO1 (via C-terminus) By similarity. Interacts with TP53INP1 and TP53INP2 By similarity. Interacts with TBC1D25 By similarity. Directly interacts with SQSTM1; this interaction leads to MAP1LC3B recruitment to inclusion bodies containing polyubiquitinated protein aggregates and to inclusion body degradation by autophagy By similarity. Ref.8
Subcellular location	Cytoplasm › cytoskeleton. Endomembrane system; Lipid-anchor. Cytoplasmic vesicle › autophagosome membrane; Lipid-anchor. Note: LC3-II binds to the autophagic membranes. Ref.6
Tissue specificity	Abundant only in neurons. Detected in testes.
Post-translational modification	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. Ref.6
Sequence similarities	Belongs to the MAP1 LC3 family.

Keywords
Biological process	Autophagy Ubl conjugation pathway
Cellular component	Cytoplasm Cytoplasmic vesicle Cytoskeleton Membrane Microtubule
Coding sequence diversity	Alternative splicing
PTM	Lipoprotein
Technical term	3D-structure Complete proteome Direct protein sequencing Reference proteome
Gene Ontology (GO)
Biological_process	autophagy Inferred from electronic annotation. Source: UniProtKB-KW positive regulation of protein binding Inferred from direct assay Ref.1. Source: RGD
Cellular_component	autophagic vacuole membrane Inferred from direct assay PubMed 15169837. Source: UniProtKB axon Inferred from direct assay Ref.1. Source: RGD cytoplasmic vesicle Inferred from electronic annotation. Source: UniProtKB-KW dendrite Inferred from direct assay Ref.1. Source: RGD endomembrane system Inferred from electronic annotation. Source: UniProtKB-SubCell microtubule Inferred from electronic annotation. Source: UniProtKB-KW microtubule associated complex Inferred from direct assay Ref.1. Source: RGD neuronal cell body Inferred from direct assay Ref.1. Source: RGD
Molecular_function	microtubule binding Inferred from direct assay Ref.1. Source: RGD
Complete GO annotation...

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Initiator methionine

Removed By similarity

Chain

2 – 120

119

Microtubule-associated proteins 1A/1B light chain 3B

PRO_0000017202

Propeptide

121 – 142

Removed in mature form Probable

PRO_0000017203

Lipidation

120

Phosphatidylethanolamine amidated glycine By similarity

Alternative sequence

126 – 142

Missing in isoform 2.

VSP_012092

Mutagenesis

120

G → A: No processing of precursor. Ref.6

142

Helix Strand Turn

Details...

Sequence		Length	Mass (Da)
Isoform 1 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: D07E9D063C125E32 Show »	FASTA	142	16,394
10 20 30 40 50 60 MPSEKTFKQR RSFEQRVEDV RLIREQHPTK IPVIIERYKG EKQLPVLDKT KFLVPDHVNM 70 80 90 100 110 120 SELIKIIRRR LQLNANQAFF LLVNGHSMVS VSTPISEVYE SERDEDGFLY MVYASQETFG 130 140 TALAVTYMSA LKATATGREP CL « Hide
Isoform 2 [UniParc]. Checksum: 520E28B28163FA8D Show »	FASTA	125	14,599
10 20 30 40 50 60 MPSEKTFKQR RSFEQRVEDV RLIREQHPTK IPVIIERYKG EKQLPVLDKT KFLVPDHVNM 70 80 90 100 110 120 SELIKIIRRR LQLNANQAFF LLVNGHSMVS VSTPISEVYE SERDEDGFLY MVYASQETFG TALAV « Hide

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Molecular characterization of light chain 3. A microtubule binding subunit of MAP1A and MAP1B." Mann S.S., Hammarback J.A. J. Biol. Chem. 269:11492-11497(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). Tissue: Brain.
[2]	"Cloning and characterization of rat lc3 orthologs." Dang Y., Yu L., Wu J., Pei Y. Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). Strain: Sprague-Dawley. Tissue: Brain.
[3]	"Rattus norvegicus microtubule-associated protein 1 light chain 3 (Map1lc3)." Zhou G., Dai F., Yu L. Submitted (SEP-2003) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 2). Strain: Sprague-Dawley.
[4]	"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). Tissue: Heart and Pituitary.
[5]	Lubec G., Kang S.U. Submitted (JUL-2007) to UniProtKB Cited for: PROTEIN SEQUENCE OF 31-37, MASS SPECTROMETRY. Strain: Sprague-Dawley. Tissue: Brain.
[6]	"LC3, a mammalian homologue of yeast Apg8p, is localized in autophagosome membranes after processing." Kabeya Y., Mizushima N., Ueno T., Yamamoto A., Kirisako T., Noda T., Kominami E., Ohsumi Y., Yoshimori T. EMBO J. 19:5720-5728(2000) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION, CLEAVAGE, MUTAGENESIS OF GLY-120.
[7]	"LC3 conjugation system in mammalian autophagy." Tanida I., Ueno T., Kominami E. Int. J. Biochem. Cell Biol. 36:2503-2518(2004) [PubMed] [Europe PMC] [Abstract] Cited for: REVIEW.
[8]	"Caldendrin but not calmodulin binds to light chain 3 of MAP1A/B: an association with the microtubule cytoskeleton highlighting exclusive binding partners for neuronal Ca(2+)-sensor proteins." Seidenbecher C.I., Landwehr M., Smalla K.H., Kreutz M., Dieterich D.C., Zuschratter W., Reissner C., Hammarback J.A., Bockers T.M., Gundelfinger E.D., Kreutz M.R. J. Mol. Biol. 336:957-970(2004) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH CABP1.
[9]	"The crystal structure of microtubule-associated protein light chain 3, a mammalian homologue of Saccharomyces cerevisiae Atg8." Sugawara K., Suzuki N.N., Fujioka Y., Mizushima N., Ohsumi Y., Inagaki F. Genes Cells 9:611-618(2004) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.05 ANGSTROMS) OF 1-120.
[10]	"The structure of Atg4B-LC3 complex reveals the mechanism of LC3 processing and delipidation during autophagy." Satoo K., Noda N.N., Kumeta H., Fujioka Y., Mizushima N., Ohsumi Y., Inagaki F. EMBO J. 28:1341-1350(2009) [PubMed] [Europe PMC] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (1.9 ANGSTROMS) OF 1-124 IN COMPLEX WITH ATG4B.
+	Additional computationally mapped references.

EMBL
GenBank
DDBJ

U05784 mRNA. Translation: AAA20645.1.
AY206669 mRNA. Translation: AAP42561.1.
AY392036 mRNA. Translation: AAQ94605.1.
BC058144 mRNA. Translation: AAH58144.1.
BC083556 mRNA. Translation: AAH83556.1.

IPI

IPI00231495.
IPI00480725.

PIR

A53624.

RefSeq

NP_074058.2. NM_022867.2.

UniGene

Rn.41412.

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1UGM	X-ray	2.05	A	1-120	[»]
2K6Q	NMR	-	A	1-120	[»]
2Z0D	X-ray	1.90	B	1-120	[»]
2Z0E	X-ray	1.90	B	1-124	[»]
2ZZP	X-ray	2.05	B	1-124	[»]

ProteinModelPortal

Q62625.

SMR

Q62625. Positions 5-122.

ModBase

Search...

IntAct

Q62625. 1 interaction.

PhosphoSite

Q62625.

PaxDb

Q62625.

StructuralBiologyKnowledgebase

Search...

Ensembl

ENSRNOT00000067141; ENSRNOP00000062130; ENSRNOG00000017905.

GeneID

64862.

KEGG

rno:64862.

UCSC

RGD:621315. rat.

CTD

81631.

RGD

621315. Map1lc3b.

eggNOG

NOG283348.

GeneTree

ENSGT00390000012937.

HOGENOM

HOG000232034.

HOVERGEN

HBG051706.

InParanoid

Q62625.

K10435.

ArrayExpress

Q62625.

Genevestigator

Q62625.

GermOnline

ENSRNOG00000038106. Rattus norvegicus.

InterPro

IPR004241. Atg8_ubiquitin-like.
[Graphical view]

PANTHER

PTHR10969. PTHR10969. 1 hit.

Pfam

PF02991. Atg8. 1 hit.
[Graphical view]

ProtoNet

Search...

EvolutionaryTrace

Q62625.

NextBio

613772.

Entry name

MLP3B_RAT

Accession

Primary (citable) accession number: Q62625
Secondary accession number(s): Q6XVN7

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 15, 1998
Last sequence update:	January 23, 2007
Last modified:	April 3, 2013
This is version 104 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform 1 (identifier: Q62625-1)

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.

Isoform 2 (identifier: Q62625-2)

The sequence of this isoform differs from the canonical sequence as follows:
126-142: Missing.