LDL2_ORYSJ
ID LDL2_ORYSJ Reviewed; 763 AA.
AC Q6YYZ1; B7F607; Q6YYZ0;
DT 01-JUL-2008, integrated into UniProtKB/Swiss-Prot.
DT 05-JUL-2004, sequence version 1.
DT 03-AUG-2022, entry version 105.
DE RecName: Full=Lysine-specific histone demethylase 1 homolog 2;
DE EC=1.-.-.-;
DE AltName: Full=Flavin-containing amine oxidase domain-containing protein 2;
DE AltName: Full=Protein LSD1-LIKE 2;
GN OrderedLocusNames=Os08g0143400, LOC_Os08g04780;
GN ORFNames=P0025F03.17-1, P0025F03.17-2, P0473D02.39-1, P0473D02.39-2;
OS Oryza sativa subsp. japonica (Rice).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; Liliopsida; Poales; Poaceae; BOP clade;
OC Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa.
OX NCBI_TaxID=39947;
RN [1]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=16100779; DOI=10.1038/nature03895;
RG International rice genome sequencing project (IRGSP);
RT "The map-based sequence of the rice genome.";
RL Nature 436:793-800(2005).
RN [2]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=18089549; DOI=10.1093/nar/gkm978;
RG The rice annotation project (RAP);
RT "The rice annotation project database (RAP-DB): 2008 update.";
RL Nucleic Acids Res. 36:D1028-D1033(2008).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Nipponbare;
RX PubMed=24280374; DOI=10.1186/1939-8433-6-4;
RA Kawahara Y., de la Bastide M., Hamilton J.P., Kanamori H., McCombie W.R.,
RA Ouyang S., Schwartz D.C., Tanaka T., Wu J., Zhou S., Childs K.L.,
RA Davidson R.M., Lin H., Quesada-Ocampo L., Vaillancourt B., Sakai H.,
RA Lee S.S., Kim J., Numa H., Itoh T., Buell C.R., Matsumoto T.;
RT "Improvement of the Oryza sativa Nipponbare reference genome using next
RT generation sequence and optical map data.";
RL Rice 6:4-4(2013).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC STRAIN=cv. Nipponbare;
RX PubMed=12869764; DOI=10.1126/science.1081288;
RG The rice full-length cDNA consortium;
RT "Collection, mapping, and annotation of over 28,000 cDNA clones from
RT japonica rice.";
RL Science 301:376-379(2003).
CC -!- FUNCTION: Probable histone demethylase. {ECO:0000250}.
CC -!- COFACTOR:
CC Name=FAD; Xref=ChEBI:CHEBI:57692; Evidence={ECO:0000305};
CC -!- SIMILARITY: Belongs to the flavin monoamine oxidase family.
CC {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BAD13198.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC Sequence=BAD17024.1; Type=Erroneous gene model prediction; Evidence={ECO:0000305};
CC ---------------------------------------------------------------------------
CC Copyrighted by the UniProt Consortium, see https://www.uniprot.org/terms
CC Distributed under the Creative Commons Attribution (CC BY 4.0) License
CC ---------------------------------------------------------------------------
DR EMBL; AP004381; BAD17023.1; -; Genomic_DNA.
DR EMBL; AP004381; BAD17024.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP005542; BAD13197.1; -; Genomic_DNA.
DR EMBL; AP005542; BAD13198.1; ALT_SEQ; Genomic_DNA.
DR EMBL; AP008214; BAF22890.1; -; Genomic_DNA.
DR EMBL; AP014964; BAT03801.1; -; Genomic_DNA.
DR EMBL; AK120532; BAH00055.1; -; mRNA.
DR RefSeq; XP_015650197.1; XM_015794711.1.
DR AlphaFoldDB; Q6YYZ1; -.
DR SMR; Q6YYZ1; -.
DR STRING; 4530.OS08T0143400-01; -.
DR PaxDb; Q6YYZ1; -.
DR PRIDE; Q6YYZ1; -.
DR EnsemblPlants; Os08t0143400-01; Os08t0143400-01; Os08g0143400.
DR GeneID; 4344644; -.
DR Gramene; Os08t0143400-01; Os08t0143400-01; Os08g0143400.
DR KEGG; osa:4344644; -.
DR eggNOG; KOG0029; Eukaryota.
DR InParanoid; Q6YYZ1; -.
DR OMA; GNLEYAC; -.
DR OrthoDB; 1034142at2759; -.
DR Proteomes; UP000000763; Chromosome 8.
DR Proteomes; UP000059680; Chromosome 8.
DR ExpressionAtlas; Q6YYZ1; baseline and differential.
DR Genevisible; Q6YYZ1; OS.
DR GO; GO:0110165; C:cellular anatomical entity; IEA:UniProt.
DR GO; GO:0050660; F:flavin adenine dinucleotide binding; IEA:UniProt.
DR GO; GO:0016491; F:oxidoreductase activity; IBA:GO_Central.
DR GO; GO:0006325; P:chromatin organization; IEA:UniProtKB-KW.
DR GO; GO:0051568; P:histone H3-K4 methylation; IEA:EnsemblPlants.
DR Gene3D; 1.10.10.10; -; 1.
DR Gene3D; 3.50.50.60; -; 1.
DR InterPro; IPR002937; Amino_oxidase.
DR InterPro; IPR036188; FAD/NAD-bd_sf.
DR InterPro; IPR009057; Homeobox-like_sf.
DR InterPro; IPR007526; SWIRM.
DR InterPro; IPR036388; WH-like_DNA-bd_sf.
DR Pfam; PF01593; Amino_oxidase; 1.
DR Pfam; PF04433; SWIRM; 1.
DR SUPFAM; SSF46689; SSF46689; 1.
DR SUPFAM; SSF51905; SSF51905; 1.
DR PROSITE; PS50934; SWIRM; 1.
PE 2: Evidence at transcript level;
KW Chromatin regulator; FAD; Flavoprotein; Oxidoreductase; Reference proteome.
FT CHAIN 1..763
FT /note="Lysine-specific histone demethylase 1 homolog 2"
FT /id="PRO_0000342897"
FT DOMAIN 53..152
FT /note="SWIRM"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00247"
FT BINDING 192
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250"
FT BINDING 194
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250"
FT BINDING 200
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250"
FT BINDING 571
FT /ligand="FAD"
FT /ligand_id="ChEBI:CHEBI:57692"
FT /evidence="ECO:0000250"
SQ SEQUENCE 763 AA; 83975 MW; CEA56FBA7D588906 CRC64;
MSSSSRRPAR RAALTARSSY DESLVDAELE SYLGNARSRR ISRLRRLSAD ERQRETETEA
LIALSLGFPI DELLPAERPL LPAPVAAAPN DYIVVRNHIL ASWRADPRVP LPRSRVQETV
AASYDNLVAV AHGFLAREGH INFGVSAAFP ASPPPDAPQR LAASVLVVGA GLAGLAAARQ
LLRFGLRVLV LEGRARPGGR VYTTHLGGDQ AAVELGGSVI TGIHTNPLGV LARQLGIPLH
KVRDSCPLYH HDGRTVDMKL DRSMDLVFNT LLEHATRLRE YLKKAAEGIS LGEGIERLRR
FYKVAKSVEE REVLDWHLAN LEFSNAGCLS ELSLAHWDQD DQYEMGGDHC FLAGGNARLV
HALCDGVPVL YEKTVKRIEH GEDGVSITVE GGQVFKADMA LCTAPLGVLK SRSIIFEPEL
PERKLEAIQR LGFGLLNKVA MVFPHVFWDE EIDTFGCLNK ERSKRGEFFL FYSYHTVSGG
AVLIALVAGE AALEFEKVDP AVALHRVLGI LKGIYGPKGV TVPDPIQSCC TRWGSDPLCS
GSYSHIRVGS SGTDYDILAE SVNDRLFFAG EATNRAYPAT MHGALLSGLR EASKILHASE
SRLNSDYKKY ALQKSIRLIN NVLDDLFMEP DLECGRFSFV FSYITPEEEQ APGLARITLE
KPLLLPSKKR KVKGNQKDQD PVAEKIDQEV FYLYATVSQE QATELLECDN DKSRIAVLCK
DLGVKLMGYD STYDVCSHLI SSISRAQKAR KRLQGPKSLK TGL
