Cannabis Compound Database: Showing Protein Lysine-specific demethylase 2B (CDBP04336)

Identification Biological properties Gene properties Protein properties External links References XML Show 5 compounds

Identification

HMDB Protein ID

CDBP04336

Secondary Accession Numbers

Not Available

Name

Lysine-specific demethylase 2B

Description

Not Available

Synonyms

CXXC-type zinc finger protein 2
F-box and leucine-rich repeat protein 10
F-box protein FBL10
F-box/LRR-repeat protein 10
JmjC domain-containing histone demethylation protein 1B
Jumonji domain-containing EMSY-interactor methyltransferase motif protein
Protein JEMMA
Protein-containing CXXC domain 2
[Histone-H3]-lysine-36 demethylase 1B

Gene Name

KDM2B

Protein Type

Enzyme

Biological Properties

General Function

Involved in DNA binding

Specific Function

Histone demethylase that demethylates 'Lys-4' and 'Lys-36' of histone H3, thereby playing a central role in histone code. Preferentially demethylates trimethylated H3 'Lys-4' and dimethylated H3 'Lys-36' residue while it has weak or no activity for mono- and tri-methylated H3 'Lys-36'. Preferentially binds the transcribed region of ribosomal RNA and represses the transcription of ribosomal RNA genes which inhibits cell growth and proliferation. May also serve as a substrate-recognition component of the SCF (SKP1-CUL1-F-box protein)-type E3 ubiquitin ligase complex.

GO Classification

Biological Process
histone H3-K36 demethylation
embryonic camera-type eye morphogenesis
fourth ventricle development
histone H2A monoubiquitination
initiation of neural tube closure
lateral ventricle development
midbrain-hindbrain boundary morphogenesis
negative regulation of neural precursor cell proliferation
third ventricle development
spermatogenesis
negative regulation of neuron apoptotic process
negative regulation of transcription from RNA polymerase II promoter
midbrain development
transcription, DNA-dependent
Cellular Component
nucleolus
nucleus
Function
ion binding
cation binding
metal ion binding
binding
transition metal ion binding
zinc ion binding
protein binding
nucleic acid binding
dna binding
Molecular Function
metal ion binding
oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen
zinc ion binding
DNA binding
histone demethylase activity (H3-K36 specific)
histone demethylase activity
rRNA binding

Cellular Location

Nucleus
nucleolus

Pathways

Not Available

Gene Properties

Chromosome Location

Locus

12q24.31

SNPs

KDM2B

Gene Sequence

>4011 bp
ATGGCGGGTCCGCAAATGGGGGGATCTGCAGAGGATCACCCCCCACGAAAAAGACATGCA
GCAGAAAAGCAAAAAAAGAAAACAGTTATATATACAAAATGCTTTGAATTTGAGTCGGCC
ACACAGCGCCCGATTGACCGCCAGCGATACGACGAGAACGAGGACTTGTCGGACGTGGAG
GAGATCGTCAGCGTCCGCGGCTTCAGCCTGGAGGAGAAGCTTCGCAGCCAGCTGTACCAG
GGGGACTTCGTGCACGCCATGGAGGGCAAAGATTTCAACTATGAGTACGTACAGAGAGAA
GCTCTCAGGGTTCCCCTGATATTTCGAGAAAAGGATGGACTGGGAATTAAGATGCCTGAC
CCTGATTTCACAGTCCGAGACGTCAAACTCCTAGTGGGGAGCCGGCGGCTTGTGGACGTG
ATGGATGTGAACACCCAGAAGGGCACGGAGATGAGCATGTCCCAGTTTGTGCGTTACTAC
GAGACGCCCGAGGCCCAGCGGGACAAGCTGTACAACGTCATCAGCCTAGAGTTCAGCCAC
ACCAAGCTGGAGCACTTGGTCAAGCGTCCGACTGTGGTAGACCTGGTGGACTGGGTGGAC
AACATGTGGCCCCAGCATCTGAAGGAGAAGCAGACAGAAGCCACGAACGCCATTGCAGAG
ATGAAGTACCCGAAAGTGAAAAAGTACTGTCTGATGAGCGTGAAAGGTTGTTTCACCGAC
TTCCACATCGACTTTGGAGGCACTTCCGTTTGGTACCATGTTTTCCGGGGTGGGAAGATT
TTTTGGCTGATTCCTCCAACGCTGCACAATTTGGCGCTGTACGAGGAGTGGGTGCTGTCA
GGCAAACAGAGTGACATCTTTCTGGGAGACCGTGTGGAACGATGCCAAAGAATTGAGCTG
AAGCAGGGCTACACATTTTTCATCCCTTCCGGTTGGATCCATGCCGTCTACACCCCTGTA
GACTCTTTGGTGTTCGGCGGAAACATCCTGCACAGCTTTAACGTGCCCATGCAGCTGCGG
ATCTACGAGATCGAGGACAGGACGCGGGTGCAGCCCAAATTCCGTTACCCCTTCTACTAT
GAGATGTGCTGGTATGTCCTGGAGAGATACGTGTACTGTGTGACCCAGCGCTCCCACCTC
ACTCAGGAATACCAGAGGGAGTCGATGCTTATTGATGCCCCGAGGAAGCCCAGCATAGAC
GGCTTCTCTTCGGATTCCTGGCTGGAGATGGAGGAGGAGGCCTGTGATCAGCAGCCTCAG
GAGGAGGAGGAGAAGGACGAGGAGGGCGAGGGCAGGGACAGGGCACCCAAACCGCCCACC
GATGGCTCCACTTCACCCACCAGCACGCCCTCTGAGGACCAGGAGGCCCTCGGGAAGAAG
CCCAAAGCACCTGCCCTGCGATTCCTCAAAAGGACTTTGTCTAATGAGTCGGAGGAAAGT
GTGAAGTCCACCACATTGGCCGTAGACTACCCCAAGACCCCCACCGGCTCTCCCGCCACG
GAGGTCTCTGCCAAATGGACCCATCTCACTGAGTTTGAACTGAAGGGCCTGAAAGCTCTG
GTGGAGAAACTGGAATCCCTCCCGGAGAACAAGAAGTGTGTCCCCGAGGGCATCGAGGAC
CCCCAGGCACTCCTGGAGGGTGTGAAGAACGTCCTGAAGGAGCACGCAGATGATGACCCT
AGTCTGGCCATCACTGGGGTCCCTGTGGTGACTTGGCCAAAGAAGACTCCAAAGAACCGG
GCTGTGGGTCGGCCCAAGGGGAAGCTGGGCCCGGCCTCCGCGGTGAAGTTGGCCGCCAAC
CGGACAACGGCAGGAGCTCGGCGGCGCCGGACGCGATGCCGCAAGTGCGAGGCCTGCCTG
CGGACCGAGTGCGGAGAGTGCCACTTCTGCAAGGACATGAAGAAGTTCGGGGGCCCCGGG
CGCATGAAGCAGAGCTGCATCATGCGGCAGTGCATCGCGCCAGTGCTGCCCCACACCGCC
GTGTGCCTTGTGTGTGGCGAGGCGGGGAAGGAAGACACGGTGGAAGAGGAGGAAGGCAAG
TTTAACCTCATGCTCATGGAGTGCTCCATCTGCAATGAAATCATCCACCCTGGATGCCTT
AAGATTAAGGAGTCAGAGGGTGTGGTCAACGACGAGCTTCCAAACTGCTGGGAGTGTCCG
AAGTGTAACCACGCCGGCAAGACCGGGAAACAAAAGCGTGGCCCTGGCTTTAAGTACGCC
TCCAACCTGCCCGGCTCCCTGCTCAAGGAGCAGAAGATGAACCGGGACAACAAGGAAGGG
CAGGAACCTGCCAAGCGGAGGAGTGAGTGTGAGGAGGCGCCCCGGCGCAGGTCGGATGAG
CACTCGAAGAAGGTGCCGCCGGACGGCCTTCTGCGCAGAAAGTCTGACGACGTGCACCTG
AGGAAGAAGCGGAAATACGAGAAGCCCCAGGAGCTGAGTGGACGCAAGCGGGCCTCATCG
CTTCAAACGTCCCCCGGTTCCTCCTCTCACCTCTCGCCGAGGCCCCCTCTAGGCAGCAGC
CTCAGCCCCTGGTGGAGATCCAGTCTCACTTACTTCCAGCAGCAGCTCAAACCTGGCAAA
GAAGATAAGCTTTTCAGGAAAAAGCGGCGGTCCTGGAAGAACGCCGAGGACCGCATGGCG
CTGGCCAACAAGCCCCTCCGGCGCTTCAAGCAGGAACCCGAGGACGAACTGCCCGAGGCG
CCCCCCAAGACCAGGGAGAGCGACCACTCCCGCTCCAGCTCCCCCACCGCGGGACCCAGC
ACCGAAGGGGCCGAGGGCCCGGAGGAGAAGAAGAAGGTGAAGATGCGCCGGAAGCGGCGG
CTTCCCAACAAGGAGCTGAGCAGGGAGCTGAGCAAGGAGCTCAACCACGAGATCCAGAGG
ACGGAGAACAGCCTGGCCAACGAGAACCAGCAGCCCATCAAGTCGGAGCCTGAGAGCGAG
GGCGAGGAGCCCAAGCGGCCCCCGGGCATCTGCGAGCGTCCCCACCGCTTCAGCAAGGGG
CTCAACGGCACCCCCCGGGAGCTGCGGCACCAGCTGGGGCCCAGCCTGCGCAGCCCGCCC
CGTGTCATCTCCCGGCCCCCACCCTCCGTGTCCCCGCCCAAGTGTATCCAGATGGAGCGC
CATGTGATCCGGCCACCCCCCATCAGCCCCCCGCCTGACTCGCTACCCCTGGACGATGGG
GCAGCCCACGTCATGCACAGGGAGGTGTGGATGGCCGTCTTCAGCTACCTCAGCCACCAA
GACCTGTGTGTGTGCATGCGGGTCTGCAGGACCTGGAACCGCTGGTGCTGCGATAAGCGG
TTGTGGACCCGCATTGACCTGAACCACTGCAAGTCTATCACACCCCTGATGCTGAGTGGC
ATCATCCGGCGACAGCCCGTCTCCCTCGACCTCAGCTGGACCAATATCTCCAAGAAGCAG
CTGAGCTGGCTCATCAACCGGCTGCCTGGGCTCCGGGACTTGGTGCTGTCAGGCTGCTCA
TGGATCGCGGTCTCGGCCCTTTGCAGCTCCAGTTGTCCGCTGCTCCGGACCCTGGATGTC
CAGTGGGTGGAGGGACTAAAGGATGCCCAGATGCGGGATCTCCTGTCCCCGCCCACAGAC
AACAGGCCAGGTCAGATGGACAATCGGAGCAAGCTCCGGAACATCGTGGAGCTGCGCCTG
GCAGGCCTGGACATCACAGATGCCTCCCTGCGGCTCATCATCCGCCACATGCCCCTGCTC
TCCAAGCTCCACCTCAGTTACTGTAACCACGTCACCGACCAGTCTATCAACCTGCTCACT
GCTGTTGGCACCACCACCCGAGACTCCTTAACCGAGATCAACCTGTCTGACTGCAATAAG
GTCACTGATCAGTGCCTGTCCTTCTTCAAACGCTGTGGAAACATCTGTCATATTGACCTG
AGGTACTGCAAGCAAGTCACCAAGGAAGGCTGTGAGCAGTTCATAGCCGAGATGTCTGTG
AGTGTCCAGTTTGGGCAAGTAGAAGAAAAACTCCTGCAAAAACTGAGTTAG

Protein Properties

Number of Residues

1336

Molecular Weight

144767.43

Theoretical pI

8.415

Pfam Domain Function

zf-CXXC (PF02008 )
F-box; (PF00646 )
JmjC (PF02373 )

Signals

Not Available

Transmembrane Regions

Not Available

Protein Sequence

>Lysine-specific demethylase 2B
MAGPQMGGSAEDHPPRKRHAAEKQKKKTVIYTKCFEFESATQRPIDRQRYDENEDLSDVE
EIVSVRGFSLEEKLRSQLYQGDFVHAMEGKDFNYEYVQREALRVPLIFREKDGLGIKMPD
PDFTVRDVKLLVGSRRLVDVMDVNTQKGTEMSMSQFVRYYETPEAQRDKLYNVISLEFSH
TKLEHLVKRPTVVDLVDWVDNMWPQHLKEKQTEATNAIAEMKYPKVKKYCLMSVKGCFTD
FHIDFGGTSVWYHVFRGGKIFWLIPPTLHNLALYEEWVLSGKQSDIFLGDRVERCQRIEL
KQGYTFFIPSGWIHAVYTPVDSLVFGGNILHSFNVPMQLRIYEIEDRTRVQPKFRYPFYY
EMCWYVLERYVYCVTQRSHLTQEYQRESMLIDAPRKPSIDGFSSDSWLEMEEEACDQQPQ
EEEEKDEEGEGRDRAPKPPTDGSTSPTSTPSEDQEALGKKPKAPALRFLKRTLSNESEES
VKSTTLAVDYPKTPTGSPATEVSAKWTHLTEFELKGLKALVEKLESLPENKKCVPEGIED
PQALLEGVKNVLKEHADDDPSLAITGVPVVTWPKKTPKNRAVGRPKGKLGPASAVKLAAN
RTTAGARRRRTRCRKCEACLRTECGECHFCKDMKKFGGPGRMKQSCIMRQCIAPVLPHTA
VCLVCGEAGKEDTVEEEEGKFNLMLMECSICNEIIHPGCLKIKESEGVVNDELPNCWECP
KCNHAGKTGKQKRGPGFKYASNLPGSLLKEQKMNRDNKEGQEPAKRRSECEEAPRRRSDE
HSKKVPPDGLLRRKSDDVHLRKKRKYEKPQELSGRKRASSLQTSPGSSSHLSPRPPLGSS
LSPWWRSSLTYFQQQLKPGKEDKLFRKKRRSWKNAEDRMALANKPLRRFKQEPEDELPEA
PPKTRESDHSRSSSPTAGPSTEGAEGPEEKKKVKMRRKRRLPNKELSRELSKELNHEIQR
TENSLANENQQPIKSEPESEGEEPKRPPGICERPHRFSKGLNGTPRELRHQLGPSLRSPP
RVISRPPPSVSPPKCIQMERHVIRPPPISPPPDSLPLDDGAAHVMHREVWMAVFSYLSHQ
DLCVCMRVCRTWNRWCCDKRLWTRIDLNHCKSITPLMLSGIIRRQPVSLDLSWTNISKKQ
LSWLINRLPGLRDLVLSGCSWIAVSALCSSSCPLLRTLDVQWVEGLKDAQMRDLLSPPTD
NRPGQMDNRSKLRNIVELRLAGLDITDASLRLIIRHMPLLSKLHLSYCNHVTDQSINLLT
AVGTTTRDSLTEINLSDCNKVTDQCLSFFKRCGNICHIDLRYCKQVTKEGCEQFIAEMSV
SVQFGQVEEKLLQKLS

External Links

GenBank ID Protein

54112382

UniProtKB/Swiss-Prot ID

Q8NHM5

UniProtKB/Swiss-Prot Entry Name

KDM2B_HUMAN

PDB IDs

Not Available

GenBank Gene ID

NM_032590.4

GeneCard ID