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Protein

E3 ubiquitin-protein ligase RBBP6

Gene

RBBP6

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

Functioni

E3 ubiquitin-protein ligase which promotes ubiquitination of YBX1, leading to its degradation by the proteasome (PubMed:18851979). May play a role as a scaffold protein to promote the assembly of the p53/TP53-MDM2 complex, resulting in increase of MDM2-mediated ubiquitination and degradation of p53/TP53; may function as negative regulator of p53/TP53, leading to both apoptosis and cell growth (By similarity). Regulates DNA-replication and the stability of chromosomal common fragile sites (CFSs) in a ZBTB38- and MCM10-dependent manner. Controls ZBTB38 protein stability and abundance via ubiquitination and proteasomal degradation, and ZBTB38 in turn negatively regulates the expression of MCM10 which plays an important role in DNA-replication (PubMed:24726359).By similarity2 Publications

Catalytic activityi

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N6-ubiquitinyl-[acceptor protein]-L-lysine.

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri159 – 176CCHC-typePROSITE-ProRule annotationAdd BLAST18
Zinc fingeri259 – 300RING-type; degeneratePROSITE-ProRule annotationAdd BLAST42

GO - Molecular functioni

  • protein kinase binding Source: UniProtKB
  • RNA binding Source: UniProtKB
  • ubiquitin protein ligase activity Source: UniProtKB
  • ubiquitin-protein transferase activity Source: UniProtKB
  • zinc ion binding Source: InterPro

GO - Biological processi

  • cellular response to DNA damage stimulus Source: UniProtKB
  • DNA replication Source: UniProtKB-KW
  • embryonic organ development Source: Ensembl
  • in utero embryonic development Source: Ensembl
  • mRNA processing Source: InterPro
  • multicellular organism growth Source: Ensembl
  • protein polyubiquitination Source: Reactome
  • regulation of DNA replication Source: UniProtKB
  • somite development Source: Ensembl
  • ubiquitin-dependent protein catabolic process Source: UniProtKB

Keywordsi

Molecular functionTransferase
Biological processDNA damage, DNA replication, Ubl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
UniPathwayiUPA00143

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase RBBP6 (EC:2.3.2.27)
Alternative name(s):
Proliferation potential-related protein
Protein P2P-R
RING-type E3 ubiquitin transferase RBBP6Curated
Retinoblastoma-binding Q protein 1
Short name:
RBQ-1
Retinoblastoma-binding protein 6
p53-associated cellular protein of testis
Gene namesi
Name:RBBP6
Synonyms:P2PR, PACT, RBQ1
ORF Names:My038
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 16

Organism-specific databases

EuPathDBiHostDB:ENSG00000122257.18
HGNCiHGNC:9889 RBBP6
MIMi600938 gene
neXtProtiNX_Q7Z6E9

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

Chromosome, Cytoplasm, Cytoskeleton, Nucleus

Pathology & Biotechi

Organism-specific databases

DisGeNETi5930
OpenTargetsiENSG00000122257
PharmGKBiPA34253

Polymorphism and mutation databases

BioMutaiRBBP6
DMDMi74762440

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002343541 – 1792E3 ubiquitin-protein ligase RBBP6Add BLAST1792

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei130N6-acetyllysineBy similarity1
Modified residuei244PhosphoserineCombined sources1
Modified residuei245PhosphoserineCombined sources1
Modified residuei246PhosphoserineCombined sources1
Modified residuei247PhosphoserineCombined sources1
Modified residuei360PhosphoserineCombined sources1
Modified residuei516PhosphoserineCombined sources1
Modified residuei768PhosphoserineCombined sources1
Modified residuei770PhosphoserineCombined sources1
Modified residuei772PhosphoserineCombined sources1
Modified residuei780PhosphoserineCombined sources1
Modified residuei815PhosphoserineCombined sources1
Modified residuei861PhosphoserineCombined sources1
Modified residuei873PhosphoserineCombined sources1
Modified residuei957PhosphoserineCombined sources1
Modified residuei984PhosphothreonineCombined sources1
Cross-linki1106Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Cross-linki1169Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in SUMO2)Combined sources
Modified residuei1179PhosphoserineCombined sources1
Modified residuei1221PhosphoserineCombined sources1
Modified residuei1271PhosphothreonineBy similarity1
Modified residuei1277PhosphoserineCombined sources1
Modified residuei1328PhosphoserineCombined sources1
Modified residuei1341PhosphoserineCombined sources1
Modified residuei1347PhosphoserineCombined sources1
Modified residuei1468PhosphothreonineCombined sources1
Modified residuei1646PhosphoserineCombined sources1
Modified residuei1648PhosphoserineCombined sources1
Modified residuei1651PhosphoserineBy similarity1

Post-translational modificationi

Phosphorylated by NEK6.1 Publication

Keywords - PTMi

Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ7Z6E9
MaxQBiQ7Z6E9
PaxDbiQ7Z6E9
PeptideAtlasiQ7Z6E9
PRIDEiQ7Z6E9
ProteomicsDBi69396
69397 [Q7Z6E9-2]
69398 [Q7Z6E9-3]
69399 [Q7Z6E9-4]

PTM databases

iPTMnetiQ7Z6E9
PhosphoSitePlusiQ7Z6E9

Miscellaneous databases

PMAP-CutDBiQ7Z6E9

Expressioni

Tissue specificityi

Highly expressed in the placenta and testis. Expressed at lower levels in the brain, heart, kidney, liver and lung. Overexpressed in esophageal cancer.1 Publication

Gene expression databases

BgeeiENSG00000122257
ExpressionAtlasiQ7Z6E9 baseline and differential
GenevisibleiQ7Z6E9 HS

Organism-specific databases

HPAiCAB032866
HPA041725
HPA043544

Interactioni

Subunit structurei

Interacts with p53/TP53 and RB1 (By similarity). Interacts also with MDM2 and YBX1. Interacts with NEK6. Interacts with ZBTB38.By similarity4 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
SRSF7Q166293EBI-2117026,EBI-398885

GO - Molecular functioni

  • protein kinase binding Source: UniProtKB

Protein-protein interaction databases

BioGridi111865, 98 interactors
DIPiDIP-46897N
IntActiQ7Z6E9, 37 interactors
MINTiQ7Z6E9
STRINGi9606.ENSP00000317872

Structurei

Secondary structure

11792
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi1 – 8Combined sources8
Beta strandi12 – 25Combined sources14
Helixi26 – 37Combined sources12
Turni41 – 43Combined sources3
Beta strandi44 – 53Combined sources10
Beta strandi63 – 65Combined sources3
Beta strandi70 – 76Combined sources7
Turni162 – 164Combined sources3
Helixi171 – 173Combined sources3
Helixi176 – 178Combined sources3
Beta strandi197 – 199Combined sources3
Helixi255 – 257Combined sources3
Beta strandi260 – 262Combined sources3
Beta strandi273 – 275Combined sources3
Helixi283 – 290Combined sources8
Beta strandi291 – 294Combined sources4
Beta strandi297 – 299Combined sources3
Turni306 – 309Combined sources4
Helixi313 – 326Combined sources14

3D structure databases

ProteinModelPortaliQ7Z6E9
SMRiQ7Z6E9
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ7Z6E9

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini4 – 76DWNNPROSITE-ProRule annotationAdd BLAST73

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni982 – 1139Interaction with RB1By similarityAdd BLAST158
Regioni1433 – 1544Interaction with p53By similarityAdd BLAST112

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri159 – 176CCHC-typePROSITE-ProRule annotationAdd BLAST18
Zinc fingeri259 – 300RING-type; degeneratePROSITE-ProRule annotationAdd BLAST42

Keywords - Domaini

Zinc-finger

Phylogenomic databases

eggNOGiKOG0314 Eukaryota
COG5222 LUCA
GeneTreeiENSGT00610000086096
HOVERGENiHBG061131
InParanoidiQ7Z6E9
KOiK10624
OMAiKERYREW
OrthoDBiEOG091G09Q6
PhylomeDBiQ7Z6E9
TreeFamiTF350543

Family and domain databases

Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR014891 DWNN_domain
IPR033489 RBBP6
IPR003613 Ubox_domain
IPR025829 Zn_knuckle_CX2CX3GHX4C
IPR001878 Znf_CCHC
IPR036875 Znf_CCHC_sf
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
PANTHERiPTHR15439:SF3 PTHR15439:SF3, 1 hit
PfamiView protein in Pfam
PF08783 DWNN, 1 hit
PF04564 U-box, 1 hit
PF13696 zf-CCHC_2, 1 hit
SMARTiView protein in SMART
SM01180 DWNN, 1 hit
SM00184 RING, 1 hit
SM00343 ZnF_C2HC, 1 hit
SUPFAMiSSF57756 SSF57756, 1 hit
PROSITEiView protein in PROSITE
PS51282 DWNN, 1 hit
PS50158 ZF_CCHC, 1 hit
PS50089 ZF_RING_2, 1 hit

Sequences (4)i

Sequence statusi: Complete.

This entry describes 4 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q7Z6E9-1) [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
MSCVHYKFSS KLNYDTVTFD GLHISLCDLK KQIMGREKLK AADCDLQITN
60 70 80 90 100
AQTKEEYTDD NALIPKNSSV IVRRIPIGGV KSTSKTYVIS RTEPAMATTK
110 120 130 140 150
AIDDSSASIS LAQLTKTANL AEANASEEDK IKAMMSQSGH EYDPINYMKK
160 170 180 190 200
PLGPPPPSYT CFRCGKPGHY IKNCPTNGDK NFESGPRIKK STGIPRSFMM
210 220 230 240 250
EVKDPNMKGA MLTNTGKYAI PTIDAEAYAI GKKEKPPFLP EEPSSSSEED
260 270 280 290 300
DPIPDELLCL ICKDIMTDAV VIPCCGNSYC DECIRTALLE SDEHTCPTCH
310 320 330 340 350
QNDVSPDALI ANKFLRQAVN NFKNETGYTK RLRKQLPPPP PPIPPPRPLI
360 370 380 390 400
QRNLQPLMRS PISRQQDPLM IPVTSSSTHP APSISSLTSN QSSLAPPVSG
410 420 430 440 450
NPSSAPAPVP DITATVSISV HSEKSDGPFR DSDNKILPAA ALASEHSKGT
460 470 480 490 500
SSIAITALME EKGYQVPVLG TPSLLGQSLL HGQLIPTTGP VRINTARPGG
510 520 530 540 550
GRPGWEHSNK LGYLVSPPQQ IRRGERSCYR SINRGRHHSE RSQRTQGPSL
560 570 580 590 600
PATPVFVPVP PPPLYPPPPH TLPLPPGVPP PQFSPQFPPG QPPPAGYSVP
610 620 630 640 650
PPGFPPAPAN LSTPWVSSGV QTAHSNTIPT TQAPPLSREE FYREQRRLKE
660 670 680 690 700
EEKKKSKLDE FTNDFAKELM EYKKIQKERR RSFSRSKSPY SGSSYSRSSY
710 720 730 740 750
TYSKSRSGST RSRSYSRSFS RSHSRSYSRS PPYPRRGRGK SRNYRSRSRS
760 770 780 790 800
HGYHRSRSRS PPYRRYHSRS RSPQAFRGQS PNKRNVPQGE TEREYFNRYR
810 820 830 840 850
EVPPPYDMKA YYGRSVDFRD PFEKERYREW ERKYREWYEK YYKGYAAGAQ
860 870 880 890 900
PRPSANRENF SPERFLPLNI RNSPFTRGRR EDYVGGQSHR SRNIGSNYPE
910 920 930 940 950
KLSARDGHNQ KDNTKSKEKE SENAPGDGKG NKHKKHRKRR KGEESEGFLN
960 970 980 990 1000
PELLETSRKS REPTGVEENK TDSLFVLPSR DDATPVRDEP MDAESITFKS
1010 1020 1030 1040 1050
VSEKDKRERD KPKAKGDKTK RKNDGSAVSK KENIVKPAKG PQEKVDGERE
1060 1070 1080 1090 1100
RSPRSEPPIK KAKEETPKTD NTKSSSSSQK DEKITGTPRK AHSKSAKEHQ
1110 1120 1130 1140 1150
ETKPVKEEKV KKDYSKDVKS EKLTTKEEKA KKPNEKNKPL DNKGEKRKRK
1160 1170 1180 1190 1200
TEEKGVDKDF ESSSMKISKL EVTEIVKPSP KRKMEPDTEK MDRTPEKDKI
1210 1220 1230 1240 1250
SLSAPAKKIK LNRETGKKIG STENISNTKE PSEKLESTSS KVKQEKVKGK
1260 1270 1280 1290 1300
VRRKVTGTEG SSSTLVDYTS TSSTGGSPVR KSEEKTDTKR TVIKTMEEYN
1310 1320 1330 1340 1350
NDNTAPAEDV IIMIQVPQSK WDKDDFESEE EDVKSTQPIS SVGKPASVIK
1360 1370 1380 1390 1400
NVSTKPSNIV KYPEKESEPS EKIQKFTKDV SHEIIQHEVK SSKNSASSEK
1410 1420 1430 1440 1450
GKTKDRDYSV LEKENPEKRK NSTQPEKESN LDRLNEQGNF KSLSQSSKEA
1460 1470 1480 1490 1500
RTSDKHDSTR ASSNKDFTPN RDKKTDYDTR EYSSSKRRDE KNELTRRKDS
1510 1520 1530 1540 1550
PSRNKDSASG QKNKPREERD LPKKGTGDSK KSNSSPSRDR KPHDHKATYD
1560 1570 1580 1590 1600
TKRPNEETKS VDKNPCKDRE KHVLEARNNK ESSGNKLLYI LNPPETQVEK
1610 1620 1630 1640 1650
EQITGQIDKS TVKPKPQLSH SSRLSSDLTR ETDEAAFEPD YNESDSESNV
1660 1670 1680 1690 1700
SVKEEESSGN ISKDLKDKIV EKAKESLDTA AVVQVGISRN QSHSSPSVSP
1710 1720 1730 1740 1750
SRSHSPSGSQ TRSHSSSASS AESQDSKKKK KKKEKKKHKK HKKHKKHKKH
1760 1770 1780 1790
AGTEVELEKS QKHKHKKKKS KKNKDKEKEK EKDDQKVKSV TV
Length:1,792
Mass (Da):201,564
Last modified:October 1, 2003 - v1
Checksum:i550F7BBA5125DA06
GO
Isoform 2 (identifier: Q7Z6E9-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     652-685: Missing.

Show »
Length:1,758
Mass (Da):197,287
Checksum:i5062A3FBA5BB5255
GO
Isoform 3 (identifier: Q7Z6E9-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     102-117: IDDSSASISLAQLTKT → VCKNTISHFFYTLLLPL
     118-1792: Missing.

Note: No experimental confirmation available.
Show »
Length:118
Mass (Da):13,235
Checksum:i18B6431D0D740828
GO
Isoform 4 (identifier: Q7Z6E9-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     431-1270: Missing.

Note: No experimental confirmation available.
Show »
Length:952
Mass (Da):106,037
Checksum:iBC28F8CCB1EED8E5
GO

Sequence cautioni

The sequence AAG43155 differs from that shown. Intron retention.Curated
The sequence AAH63524 differs from that shown. Contaminating sequence. Potential poly-A sequence.Curated
The sequence AAL05625 differs from that shown. Reason: Frameshift at position 198.Curated
The sequence AAL68925 differs from that shown. Intron retention.Curated
The sequence CAA59445 differs from that shown. Reason: Frameshift at positions 198, 1048 and 1098.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti223I → T in AAL68925 (Ref. 5) Curated1
Sequence conflicti1633D → H in AAL68925 (Ref. 5) Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_05130643D → H. Corresponds to variant dbSNP:rs16973796Ensembl.1
Natural variantiVAR_026216555V → A. Corresponds to variant dbSNP:rs16973840Ensembl.1
Natural variantiVAR_0513071208K → I. Corresponds to variant dbSNP:rs3743968Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_018281102 – 117IDDSS…QLTKT → VCKNTISHFFYTLLLPL in isoform 3. 1 PublicationAdd BLAST16
Alternative sequenceiVSP_018282118 – 1792Missing in isoform 3. 1 PublicationAdd BLAST1675
Alternative sequenceiVSP_018283431 – 1270Missing in isoform 4. 1 PublicationAdd BLAST840
Alternative sequenceiVSP_018284652 – 685Missing in isoform 2. 2 PublicationsAdd BLAST34

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB112074 mRNA Translation: BAC77636.1
AB112075 mRNA Translation: BAC77637.1
CH471145 Genomic DNA Translation: EAW55789.1
BC029352 mRNA Translation: AAH29352.1
BC063524 mRNA Translation: AAH63524.1 Sequence problems.
BC073938 mRNA Translation: AAH73938.1
BC101139 mRNA Translation: AAI01140.1
BC101140 mRNA Translation: AAI01141.1
BC101141 mRNA Translation: AAI01142.1
BC101142 mRNA Translation: AAI01143.1
BC114353 mRNA Translation: AAI14354.1
BC114354 mRNA Translation: AAI14355.1
BC118667 mRNA Translation: AAI18668.1
BC139830 mRNA Translation: AAI39831.1
AF063596 mRNA Translation: AAG43155.1 Sequence problems.
AY072922 mRNA Translation: AAL68925.1 Sequence problems.
AF352051 mRNA Translation: AAL05625.1 Frameshift.
X85133 mRNA Translation: CAA59445.1 Frameshift.
AK026954 mRNA Translation: BAB15600.1
AL359564 mRNA Translation: CAB94869.1
CCDSiCCDS10621.1 [Q7Z6E9-1]
CCDS10622.1 [Q7Z6E9-2]
CCDS45444.1 [Q7Z6E9-3]
PIRiA57640
T50609
RefSeqiNP_008841.2, NM_006910.4 [Q7Z6E9-1]
NP_061173.1, NM_018703.3 [Q7Z6E9-2]
NP_116015.2, NM_032626.5 [Q7Z6E9-3]
UniGeneiHs.188553

Genome annotation databases

EnsembliENST00000319715; ENSP00000317872; ENSG00000122257 [Q7Z6E9-1]
ENST00000348022; ENSP00000316291; ENSG00000122257 [Q7Z6E9-2]
ENST00000381039; ENSP00000370427; ENSG00000122257 [Q7Z6E9-4]
ENST00000452655; ENSP00000390537; ENSG00000122257 [Q7Z6E9-3]
GeneIDi5930
KEGGihsa:5930
UCSCiuc002dmg.4 human [Q7Z6E9-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiRBBP6_HUMAN
AccessioniPrimary (citable) accession number: Q7Z6E9
Secondary accession number(s): Q147T5
, Q15290, Q6DKH4, Q6P4C2, Q6YNC9, Q7Z6E8, Q8N0V2, Q96PH3, Q9H3I8, Q9H5M5, Q9NPX4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 16, 2006
Last sequence update: October 1, 2003
Last modified: July 18, 2018
This is version 152 of the entry and version 1 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. Human chromosome 16
    Human chromosome 16: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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