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Protein

Retinoblastoma-related protein 1

Gene

RBR1

Organism
Arabidopsis thaliana (Mouse-ear cress)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Key regulator of entry into cell division. Acts as a transcription repressor of E2F target genes, whose activity is required for progress from the G1 to the S phase of the cell cycle. Hyperphosphorylation by CDKA-1 prevents the binding to E2F transcription factors, allowing G1 to S phase transition to operate (PubMed:18064404, PubMed:21444209). Forms a stable complex with E2FA that functions in maintaining cell proliferation through repression of cell differentiation (PubMed:22307083). Plays a central role in the mechanism controlling meristem cell differentiation, cell fate establishment and cell fate maintenance during organogenesis and gametogenesis (PubMed:16377572, PubMed:16815954, PubMed:19359496, PubMed:20525851, PubMed:20585548, PubMed:20683442, PubMed:22595674, PubMed:24285791, PubMed:25303364). Required during lateral organ production (PubMed:20525851). Also involved in controlling asymmetric divisions of stem cells in different stem cell niches (PubMed:22921914, PubMed:23104828, PubMed:24302889). Acts as negative regulator of cell proliferation during leaf and gametophytes development (PubMed:15201912, PubMed:16361519, PubMed:18976913). At later stages of development, restricts the progression through additional endocycles (PubMed:16361519). In the leaf, plays a role in the control of the mesophyll differentiation (PubMed:24118480). Another role is its implication in the regulation of imprinted genes. Acts together with MSI1 to repress the expression of MET1 during gametogenesis. This in turn activates expression of the imprinted genes FIS2 and FWA (PubMed:18700816). Regulates many genes of the polycomb repressive complex 2 (PRC2) (PubMed:18976913, PubMed:19704913, PubMed:20585548). Plays an important role in meiosis affecting different aspects of this complex process (PubMed:21217641). Functions as a positive regulator of the developmental switch from embryonic heterotrophic growth to autotrophic growth (PubMed:21693514). Interaction with mastrevirus RepA or nanovirus Clink protein disrupts the RBR/E2F interaction and releases the transcription of replicative enzymes needed by the virus by increasing the E2F DNA-binding activity (PubMed:16361519).22 Publications

GO - Molecular functioni

  • DNA binding Source: TAIR
  • transcription factor binding Source: TAIR

GO - Biological processi

  • asymmetric cell division Source: UniProtKB
  • cell differentiation Source: UniProtKB
  • cell fate specification Source: UniProtKB
  • double fertilization forming a zygote and endosperm Source: TAIR
  • embryo sac development Source: TAIR
  • G1/S transition of mitotic cell cycle Source: UniProtKB
  • gametophyte development Source: UniProtKB
  • generative cell differentiation Source: TAIR
  • guard cell fate commitment Source: UniProtKB
  • leaf development Source: TAIR
  • palisade mesophyll development Source: UniProtKB
  • pollen development Source: TAIR
  • regulation of cell cycle Source: TAIR
  • regulation of cell growth Source: UniProtKB
  • regulation of DNA endoreduplication Source: TAIR
  • regulation of gene expression by genetic imprinting Source: TAIR
  • regulation of genetic imprinting Source: UniProtKB
  • regulation of nuclear division Source: TAIR
  • regulation of stem cell population maintenance Source: UniProtKB
  • regulation of transcription from RNA polymerase II promoter Source: InterPro
  • synapsis Source: UniProtKB
  • transcription, DNA-templated Source: UniProtKB-KW
  • trichome morphogenesis Source: TAIR
  • viral process Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Repressor

Keywords - Biological processi

Cell cycle, Host-virus interaction, Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiR-ATH-113501. Inhibition of replication initiation of damaged DNA by RB1/E2F1.
R-ATH-1538133. G0 and Early G1.
R-ATH-2299718. Condensation of Prophase Chromosomes.
R-ATH-68949. Orc1 removal from chromatin.
R-ATH-69231. Cyclin D associated events in G1.
R-ATH-69656. Cyclin A:Cdk2-associated events at S phase entry.

Names & Taxonomyi

Protein namesi
Recommended name:
Retinoblastoma-related protein 1
Short name:
AtRBR
Short name:
AtRBR1
Gene namesi
Name:RBR1
Synonyms:RBR
Ordered Locus Names:At3g12280
ORF Names:F28J15.11
OrganismiArabidopsis thaliana (Mouse-ear cress)
Taxonomic identifieri3702 [NCBI]
Taxonomic lineageiEukaryotaViridiplantaeStreptophytaEmbryophytaTracheophytaSpermatophytaMagnoliophytaeudicotyledonsGunneridaePentapetalaerosidsmalvidsBrassicalesBrassicaceaeCamelineaeArabidopsis
Proteomesi
  • UP000006548 Componenti: Chromosome 3

Organism-specific databases

TAIRiAT3G12280.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: TAIR
  • nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Plants are gametophytic lethals (PubMed:15201912). During meiosis, reduction in the formation of meiotic crossing-overs and a failure of chromosome synapsis, leading to a dramatic reduction in fertility (PubMed:21217641).2 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi849N → F: Abolishes interaction with HAT2. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003352521 – 1013Retinoblastoma-related protein 1Add BLAST1013

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei885PhosphoserineCombined sources1
Modified residuei898PhosphoserineCombined sources1

Post-translational modificationi

Highly phosphorylated by CDKA-1 during G1 to S phase transition. Once hyper-phosphorylated, becomes inactive and unable to interact with E2F.3 Publications
Ubiquitinated (Probable). Subject to proteasome-dependent degradation during sucrose starvation (PubMed:21444209).Curated1 Publication

Keywords - PTMi

Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiQ9LKZ3.
PRIDEiQ9LKZ3.

PTM databases

iPTMnetiQ9LKZ3.

Expressioni

Tissue specificityi

Expressed in actively dividing cells. Detected in the shoot apical meristem, in young leaf primordia and in both sporophytic tissue and the megagametophyte.1 Publication

Developmental stagei

Highly expressed before and after fertilization (PubMed:15201912). During meiosis, found to localize along the chromosome axes during late G2/early leptotene. As prophase I progressed, a lower expression is detectable at zygotene then more reduced at pachytene. Not detected at later stages (PubMed:21217641).2 Publications

Inductioni

The polycomb repressive complex 2 (PRC2) containing MSI1, MEA, FIS2 and FIE repress the paternal RBR allele during pollen and seed development (PubMed:18976913). Down-regulated by TCP15 (PubMed:21992944).2 Publications

Gene expression databases

ExpressionAtlasiQ9LKZ3. baseline and differential.
GenevisibleiQ9LKZ3. AT.

Interactioni

Subunit structurei

Interacts with the begomovirus replication-associated protein (Rep) (PubMed:10880461), the nanovirus Clink protein (PubMed:17267511), the mastrevirus RepA protein, E2FA, E2FB and E2FC (PubMed:16361519, PubMed:18064404, PubMed:16055635, PubMed:20683442, PubMed:22307083). Interacts with MSI1 through its Domain A (PubMed:18700816). Interacts with ATPK1/S6K1 (PubMed:20683442). Interacts with SCR (PubMed:22921914, PubMed:24302889). Interacts with HAT2 (PubMed:24302889). Interacts with FAMA (PubMed:25303364).11 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ATPK1P428182EBI-398590,EBI-8107038
E2FAQ9FNY04EBI-398590,EBI-1774747
E2FBQ9FV714EBI-398590,EBI-1774719
E2FCQ9FV702EBI-398590,EBI-2131346
FIEQ9LT472EBI-398590,EBI-307146
SCRQ9M3844EBI-398590,EBI-1250484

GO - Molecular functioni

  • transcription factor binding Source: TAIR

Protein-protein interaction databases

BioGridi5742. 22 interactors.
DIPiDIP-33046N.
IntActiQ9LKZ3. 13 interactors.
MINTiMINT-8050651.
STRINGi3702.AT3G12280.1.

Structurei

3D structure databases

ProteinModelPortaliQ9LKZ3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni406 – 858PocketAdd BLAST453
Regioni406 – 607Domain AAdd BLAST202
Regioni608 – 727SpacerAdd BLAST120
Regioni728 – 858Domain BAdd BLAST131

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi719 – 722Poly-Gly4

Sequence similaritiesi

Belongs to the retinoblastoma protein (RB) family.Curated

Phylogenomic databases

eggNOGiKOG1010. Eukaryota.
ENOG410XQF7. LUCA.
HOGENOMiHOG000078660.
InParanoidiQ9LKZ3.
KOiK04681.
OMAiARMFANE.
OrthoDBiEOG09360174.
PhylomeDBiQ9LKZ3.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
InterProiIPR013763. Cyclin-like.
IPR002720. RB_A.
IPR002719. RB_B.
IPR015030. RB_C.
IPR028309. RB_fam.
IPR024599. RB_N.
IPR015652. RBR.
[Graphical view]
PANTHERiPTHR13742. PTHR13742. 1 hit.
PTHR13742:SF17. PTHR13742:SF17. 1 hit.
PfamiPF11934. DUF3452. 1 hit.
PF01858. RB_A. 1 hit.
PF01857. RB_B. 1 hit.
PF08934. Rb_C. 1 hit.
[Graphical view]
SMARTiSM01367. DUF3452. 1 hit.
SM01368. RB_A. 1 hit.
[Graphical view]
SUPFAMiSSF47954. SSF47954. 2 hits.

Sequencei

Sequence statusi: Complete.

This entry describes 1 isoform i produced by alternative splicing. AlignAdd to basket

Note: A number of isoforms are produced. According to EST sequences.
Isoform 1 (identifier: Q9LKZ3-1) [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
MEEVQPPVTP PIEPNGKRSE ASLLDICEKV LSLDGSTCDE ALKLFTETKR
60 70 80 90 100
ILSASMSNIG SGTREEVERF WFAFILYSVK RLSVRKEADG LSVSGDNEFN
110 120 130 140 150
LCQILRALKL NIVDFFKELP QFVVKAGSVL GELYGADWEN RLQAKEVQAN
160 170 180 190 200
FVHLSLLSKY YKRGFREFFL TYDANAEKNS ANSSTYLLDS YRFGWLLFLA
210 220 230 240 250
LRNHAFSRFK DLVTCSNGVV SILAILIIHV PCRFRNFSIQ DSSRFVKKGD
260 270 280 290 300
KGVDLVASLC KIYDASEDEL RIVIDKANNL VETILKKKPS PASECQTDKL
310 320 330 340 350
DNIDPDGLTY FEDLLEETSI STSLITLEKD YYDGKGELDE RVFINEEDSL
360 370 380 390 400
LGSGSLSAGA VNITGVKRKI DALSSPARTF ISPLSPHKSP AAKTNGISGA
410 420 430 440 450
TKLAATPVST AMTTAKWLRT VISPLLPKPS PGLEHFLKSC DRDITNDVTR
460 470 480 490 500
RAHIILEAIF PNSSLGAQCG GGSLQAVDLM DDIWAEQRRL EACKLYYRVL
510 520 530 540 550
EAMCKAEAQI LHANNLNSLL TNERFHRCML ACSAELVLAT HKTITMLFPA
560 570 580 590 600
VLERTGITAF DLSKVIESFI RHEDSLPREL RRHLNSLEER LLESMVWEKG
610 620 630 640 650
SSMYNSLIVA RPSLALEINQ LGLLAEPMPS LDAIAALINF SDGANHASSV
660 670 680 690 700
QKHETCPGQN GGIRSPKRLC TDYRSILVER NSFTSPVKDR LLALGNVKSK
710 720 730 740 750
MLPPPLQSAF ASPTRPNPGG GGETCAETGI NIFFTKINKL AAVRINGMVE
760 770 780 790 800
RLQLSQQIRE SVYCFFQHVL AQRTSLLFSR HIDQIILCCF YGVAKISQMS
810 820 830 840 850
LTFREIIYNY RKQPQCKPLV FRSVYVDALQ CRRQGRIGPD HVDIITFYNE
860 870 880 890 900
IFIPAVKPLL VELGPVRNDR AVEANNKPEG QCPGSPKVSV FPSVPDMSPK
910 920 930 940 950
KVSAVHNVYV SPLRGSKMDA LISHSTKSYY ACVGESTHAY QSPSKDLSAI
960 970 980 990 1000
NNRLNNSSSN RKRTLNFDAE AGMVSDSMVA NSLNLQNQNQ NQNGSDASSS
1010
GGAAPLKTEP TDS
Length:1,013
Mass (Da):112,175
Last modified:October 1, 2000 - v1
Checksum:iF3CD279ED508C263
GO

Sequence cautioni

The sequence AAG51072 differs from that shown. Reason: Erroneous gene model prediction.Curated
The sequence BAB03137 differs from that shown. Reason: Erroneous gene model prediction.Curated

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti628M → I in AAL07142 (PubMed:14593172).Curated1

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF245395 mRNA. Translation: AAF79146.1.
AP002047 Genomic DNA. Translation: BAB03137.1. Sequence problems.
AC069472 Genomic DNA. Translation: AAG51072.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE75179.1.
AY056293 mRNA. Translation: AAL07142.1.
AY150438 mRNA. Translation: AAN12980.1.
RefSeqiNP_566417.3. NM_112064.5. [Q9LKZ3-1]
UniGeneiAt.14958.

Genome annotation databases

EnsemblPlantsiAT3G12280.1; AT3G12280.1; AT3G12280. [Q9LKZ3-1]
GeneIDi820408.
GrameneiAT3G12280.1; AT3G12280.1; AT3G12280.
KEGGiath:AT3G12280.

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF245395 mRNA. Translation: AAF79146.1.
AP002047 Genomic DNA. Translation: BAB03137.1. Sequence problems.
AC069472 Genomic DNA. Translation: AAG51072.1. Sequence problems.
CP002686 Genomic DNA. Translation: AEE75179.1.
AY056293 mRNA. Translation: AAL07142.1.
AY150438 mRNA. Translation: AAN12980.1.
RefSeqiNP_566417.3. NM_112064.5. [Q9LKZ3-1]
UniGeneiAt.14958.

3D structure databases

ProteinModelPortaliQ9LKZ3.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi5742. 22 interactors.
DIPiDIP-33046N.
IntActiQ9LKZ3. 13 interactors.
MINTiMINT-8050651.
STRINGi3702.AT3G12280.1.

PTM databases

iPTMnetiQ9LKZ3.

Proteomic databases

PaxDbiQ9LKZ3.
PRIDEiQ9LKZ3.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblPlantsiAT3G12280.1; AT3G12280.1; AT3G12280. [Q9LKZ3-1]
GeneIDi820408.
GrameneiAT3G12280.1; AT3G12280.1; AT3G12280.
KEGGiath:AT3G12280.

Organism-specific databases

TAIRiAT3G12280.

Phylogenomic databases

eggNOGiKOG1010. Eukaryota.
ENOG410XQF7. LUCA.
HOGENOMiHOG000078660.
InParanoidiQ9LKZ3.
KOiK04681.
OMAiARMFANE.
OrthoDBiEOG09360174.
PhylomeDBiQ9LKZ3.

Enzyme and pathway databases

ReactomeiR-ATH-113501. Inhibition of replication initiation of damaged DNA by RB1/E2F1.
R-ATH-1538133. G0 and Early G1.
R-ATH-2299718. Condensation of Prophase Chromosomes.
R-ATH-68949. Orc1 removal from chromatin.
R-ATH-69231. Cyclin D associated events in G1.
R-ATH-69656. Cyclin A:Cdk2-associated events at S phase entry.

Miscellaneous databases

PROiQ9LKZ3.

Gene expression databases

ExpressionAtlasiQ9LKZ3. baseline and differential.
GenevisibleiQ9LKZ3. AT.

Family and domain databases

Gene3Di1.10.472.10. 2 hits.
InterProiIPR013763. Cyclin-like.
IPR002720. RB_A.
IPR002719. RB_B.
IPR015030. RB_C.
IPR028309. RB_fam.
IPR024599. RB_N.
IPR015652. RBR.
[Graphical view]
PANTHERiPTHR13742. PTHR13742. 1 hit.
PTHR13742:SF17. PTHR13742:SF17. 1 hit.
PfamiPF11934. DUF3452. 1 hit.
PF01858. RB_A. 1 hit.
PF01857. RB_B. 1 hit.
PF08934. Rb_C. 1 hit.
[Graphical view]
SMARTiSM01367. DUF3452. 1 hit.
SM01368. RB_A. 1 hit.
[Graphical view]
SUPFAMiSSF47954. SSF47954. 2 hits.
ProtoNetiSearch...

Entry informationi

Entry nameiRBR1_ARATH
AccessioniPrimary (citable) accession number: Q9LKZ3
Secondary accession number(s): Q93ZS5, Q9C7C9, Q9LHH8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 20, 2008
Last sequence update: October 1, 2000
Last modified: November 30, 2016
This is version 123 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programPlant Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Arabidopsis thaliana
    Arabidopsis thaliana: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.