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Protein

Lysine-specific demethylase 9

Gene

RSBN1

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Histone demethylase that specifically demethylates dimethylated 'Lys-20' of histone H4 (H4K20me2), thereby modulating chromosome architecture.By similarity

Cofactori

Fe2+By similarityNote: Binds 1 Fe2+ ion per subunit.By similarity

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Binding sitei579Alpha-ketoglutarateBy similarity1
Metal bindingi582Iron, catalyticBy similarity1
Metal bindingi584Iron, catalyticBy similarity1
Binding sitei676Alpha-ketoglutarateBy similarity1
Metal bindingi684Iron, catalyticBy similarity1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionChromatin regulator, Dioxygenase, Oxidoreductase
LigandIron, Metal-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Lysine-specific demethylase 9By similarity (EC:1.14.11.-By similarity)
Short name:
KDM9By similarity
Alternative name(s):
Round spermatid basic protein 1
Gene namesi
Name:RSBN1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000081019.13
HGNCiHGNC:25642 RSBN1
MIMi615858 gene
neXtProtiNX_Q5VWQ0

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi54665
OpenTargetsiENSG00000081019
PharmGKBiPA134869532

Polymorphism and mutation databases

BioMutaiRSBN1
DMDMi257050986

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002994121 – 802Lysine-specific demethylase 9Add BLAST802

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei81PhosphoserineCombined sources1
Cross-linki290Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki313Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki740Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki781Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources

Post-translational modificationi

Phosphorylated by PKA.By similarity

Keywords - PTMi

Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ5VWQ0
MaxQBiQ5VWQ0
PaxDbiQ5VWQ0
PeptideAtlasiQ5VWQ0
PRIDEiQ5VWQ0

PTM databases

iPTMnetiQ5VWQ0
PhosphoSitePlusiQ5VWQ0

Expressioni

Gene expression databases

BgeeiENSG00000081019
CleanExiHS_RSBN1
ExpressionAtlasiQ5VWQ0 baseline and differential
GenevisibleiQ5VWQ0 HS

Organism-specific databases

HPAiHPA042124
HPA049484

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
KAT6BQ8WYB54EBI-1210591,EBI-948029

Protein-protein interaction databases

BioGridi12009457 interactors.
IntActiQ5VWQ0 4 interactors.
STRINGi9606.ENSP00000261441

Structurei

3D structure databases

ProteinModelPortaliQ5VWQ0
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi252 – 263Nuclear localization signalSequence analysisAdd BLAST12

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi103 – 165Pro-richAdd BLAST63
Compositional biasi114 – 117Poly-Arg4
Compositional biasi185 – 197His-richAdd BLAST13
Compositional biasi252 – 261Poly-Lys10

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG4425 Eukaryota
ENOG410XSZP LUCA
GeneTreeiENSGT00390000001969
HOGENOMiHOG000043117
HOVERGENiHBG094904
InParanoidiQ5VWQ0
OMAiGDLKHKD
OrthoDBiEOG091G026S
PhylomeDBiQ5VWQ0
TreeFamiTF323256

Family and domain databases

InterProiView protein in InterPro
IPR026306 RSBN1/Dpy-21
PANTHERiPTHR13354 PTHR13354, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q5VWQ0-1) [UniParc]FASTAAdd to basket

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.

« Hide

        10         20         30         40         50
MFISGRRTAD KWRAEERLQC PAGSARAALA RCADGGAVGP FKCVFVGEMA
60 70 80 90 100
AQVGAVRVVR AVAAQEEPDK EGKEKPHAGV SPRGVKRQRR SSSGGSQEKR
110 120 130 140 150
GRPSQEPPLA PPHRRRRSRQ HPGPLPPTNA APTVPGPVEP LLLPPPPPPS
160 170 180 190 200
LAPAGPAVAA PLPAPSTSAL FTFSPLTVSA AGPKHKGHKE RHKHHHHRGP
210 220 230 240 250
DGDPSSCGTD LKHKDKQENG ERTGGVPLIK APKRETPDEN GKTQRADDFV
260 270 280 290 300
LKKIKKKKKK KHREDMRGRR LKMYNKEVQT VCAGLTRISK EILTQGQINS
310 320 330 340 350
TSGLNKESFR YLKDEQLCRL NLGMQEYRVP QGVQTPFMTH QEHSIRRNFL
360 370 380 390 400
KTGTKFSNFI HEEHQSNGGA LVLHAYMDEL SFLSPMEMER FSEEFLALTF
410 420 430 440 450
SENEKNAAYY ALAIVHGAAA YLPDFLDYFA FNFPNTPVKM EILGKKDIET
460 470 480 490 500
TTISNFHTQV NRTYCCGTYR AGPMRQISLV GAVDEEVGDY FPEFLDMLEE
510 520 530 540 550
SPFLKMTLPW GTLSSLRLQC RSQSDDGPIM WVRPGEQMIP TADMPKSPFK
560 570 580 590 600
RRRSMNEIKN LQYLPRTSEP REVLFEDRTR AHADHVGQGF DWQSTAAVGV
610 620 630 640 650
LKAVQFGEWS DQPRITKDVI CFHAEDFTDV VQRLQLDLHE PPVSQCVQWV
660 670 680 690 700
DEAKLNQMRR EGIRYARIQL CDNDIYFIPR NVIHQFKTVS AVCSLAWHIR
710 720 730 740 750
LKQYHPVVEA TQNTESNSNM DCGLTGKREL EVDSQCVRIK TESEEACTEI
760 770 780 790 800
QLLTTASSSF PPASELNLQQ DQKTQPIPVL KVESRLDSDQ QHNLQEHSTT

SV
Length:802
Mass (Da):90,072
Last modified:September 1, 2009 - v2
Checksum:i78F229AB6A0FABD1
GO
Isoform 4 (identifier: Q5VWQ0-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     460-802: Missing.

Show »
Length:459
Mass (Da):50,802
Checksum:i9B1EA055DF7807A1
GO

Sequence cautioni

The sequence AAH26155 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAA92075 differs from that shown. Reason: Erroneous initiation.Curated
The sequence BAB13974 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAH10493 differs from that shown. Aberrant splicing.Curated
The sequence CAH10493 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.Curated
The sequence CAH72507 differs from that shown. Reason: Erroneous initiation.Curated
The sequence CAI19067 differs from that shown. Reason: Erroneous initiation.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti39 – 40GP → SG in AAH26155 (PubMed:15489334).Curated2
Sequence conflicti106E → G in BAF85241 (PubMed:14702039).Curated1
Sequence conflicti120Q → R in BAA92075 (PubMed:14702039).Curated1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_027656460 – 802Missing in isoform 4. 1 PublicationAdd BLAST343

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK002082 mRNA Translation: BAA92075.1 Different initiation.
AK292552 mRNA Translation: BAF85241.1
AK022166 mRNA Translation: BAB13974.1 Different initiation.
AL365321, AL137856 Genomic DNA Translation: CAH72507.1 Different initiation.
AL137856, AL365321 Genomic DNA Translation: CAI19067.1 Different initiation.
BC026155 mRNA Translation: AAH26155.1 Different initiation.
CR627402 mRNA Translation: CAH10493.1 Sequence problems.
CCDSiCCDS862.1 [Q5VWQ0-1]
RefSeqiNP_060834.2, NM_018364.4 [Q5VWQ0-1]
XP_016857007.1, XM_017001518.1 [Q5VWQ0-4]
UniGeneiHs.486285

Genome annotation databases

EnsembliENST00000261441; ENSP00000261441; ENSG00000081019 [Q5VWQ0-1]
ENST00000612242; ENSP00000479490; ENSG00000081019 [Q5VWQ0-1]
GeneIDi54665
KEGGihsa:54665
UCSCiuc001edq.4 human [Q5VWQ0-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiRSBN1_HUMAN
AccessioniPrimary (citable) accession number: Q5VWQ0
Secondary accession number(s): A8K937
, Q6AI21, Q8TC33, Q9HA80, Q9NUP6
Entry historyiIntegrated into UniProtKB/Swiss-Prot: September 11, 2007
Last sequence update: September 1, 2009
Last modified: April 25, 2018
This is version 106 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome