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Basic Information Integrated Annotations

Tag Content
iUUCD ID IUUC-Mmu-064297
UUCD1 version UUC-MuM-00299
Ensembl Protein ID ENSMUSP00000077584.5
UniProt Accession P15919; A2AVN8; RAG1_MOUSE
Genbank Protein ID AAA40028.1; CAM20888.1; EDL27655.1; AAI38343.1
Protein Name V(D)J recombination-activating protein 1; Endonuclease RAG1; E3 ubiquitin-protein ligase RAG1; RING-type E3 ubiquitin transferase RAG1
Genbank Nucleotide ID M29475; AL929569; CH466519; BC138342
Gene Name Rag1
Ensembl Information
Ensembl Gene ID Ensembl Transcript ID Ensembl Protein ID
ENSMUSG00000061311.6 ENSMUST00000078494.5 ENSMUSP00000077584.5
Annotation
Single Nucleotide Polymorphisms (SNP)
dbSNP
mRNA Expression
GEOArrayExpressGXD
DNA & RNA Element
AREsitemicroRNATRANSFACRepTar
RAID2
Protein-protein Interaction
IIDiRefIndexPINAHINT
Mentha
Protein 3D Structure
PDBMMDB
Post-translational Modifications (PTMs)
dbPAFPhosphositePlusdbPTMmUbiSiDa
Protein Expression/Proteomics
GPMDB
Status Reviewed
Details
Family Domain References (PMIDs)
E3 activity/RING/RING RING 26124138
Reviewed
Classification
Family Identity E-value Score Source Orthology
E3 activity/RING/RING 89.84 0.00e+00 1951.00 IUUC-Hsa-045964
Organism Mus musculus
Functional Description
(View)

Functional Description



     Catalytic component of the RAG complex, a multiprotein complex that mediates the DNA cleavage phase during V(D)J recombination. V(D)J recombination assembles a diverse repertoire of immunoglobulin and T-cell receptor genes in developing B and T-lymphocytes through rearrangement of different V (variable), in some cases D (diversity), and J (joining) gene segments. In the RAG complex, RAG1 mediates the DNA-binding to the conserved recombination signal sequences (RSS) and catalyzes the DNA cleavage activities by introducing a double-strand break between the RSS and the adjacent coding segment. RAG2 is not a catalytic component but is required for all known catalytic activities. DNA cleavage occurs in 2 steps: a first nick is introduced in the top strand immediately upstream of the heptamer, generating a 3'-hydroxyl group that can attack the phosphodiester bond on the opposite strand in a direct transesterification reaction, thereby creating 4 DNA ends: 2 hairpin coding ends and 2 blunt, 5'-phosphorylated ends. The chromatin structure plays an essential role in the V(D)J recombination reactions and the presence of histone H3 trimethylated at 'Lys-4' (H3K4me3) stimulates both the nicking and haipinning steps. The RAG complex also plays a role in pre-B cell allelic exclusion, a process leading to expression of a single immunoglobulin heavy chain allele to enforce clonality and monospecific recognition by the B-cell antigen receptor (BCR) expressed on individual B-lymphocytes. The introduction of DNA breaks by the RAG complex on one immunoglobulin allele induces ATM-dependent repositioning of the other allele to pericentromeric heterochromatin, preventing accessibility to the RAG complex and recombination of the second allele. In addition to its endonuclease activity, RAG1 also acts as an E3 ubiquitin-protein ligase that mediates monoubiquitination of histone H3. Histone H3 monoubiquitination is required for the joining step of V(D)J recombination. Mediates polyubiquitination of KPNA1.
Catalytic component of the RAG complex, a multiprotein complex that mediates the DNA cleavage phase during V(D)J recombination. V(D)J recombination assembles a diverse repertoire of immunoglobulin and T-cell receptor genes in developing B and T-lymphocytes through rearrangement of different V (variable), in some cases D (diversity), and J (joining) gene segments. In the RAG complex, RAG1 mediates the DNA-binding to the conserved recombination signal sequences (RSS) and catalyzes the DNA cleavage activities by introducing a double-strand break between the RSS and the adjacent coding segment. RAG2 is not a catalytic component but is required for all known catalytic activities. DNA cleavage occurs in 2 steps: a first nick is introduced in the top strand immediately upstream of the heptamer, generating a 3'-hydroxyl group that can attack the phosphodiester bond on the opposite strand in a direct transesterification reaction, thereby creating 4 DNA ends: 2 hairpin coding ends and 2 blunt, 5'-phosphorylated ends. The chromatin structure plays an essential role in the V(D)J recombination reactions and the presence of histone H3 trimethylated at 'Lys-4' (H3K4me3) stimulates both the nicking and haipinning steps. The RAG complex also plays a role in pre-B cell allelic exclusion, a process leading to expression of a single immunoglobulin heavy chain allele to enforce clonality and monospecific recognition by the B-cell antigen receptor (BCR) expressed on individual B-lymphocytes. The introduction of DNA breaks by the RAG complex on one immunoglobulin allele induces ATM-dependent repositioning of the other allele to pericentromeric heterochromatin, preventing accessibility to the RAG complex and recombination of the second allele. In addition to its endonuclease activity, RAG1 also acts as an E3 ubiquitin-protein ligase that mediates monoubiquitination of histone H3. Histone H3 monoubiquitination is required for the joining step of V(D)J recombination. Mediates polyubiquitination of KPNA1.
Protein Sequence
(Fasta)
MAASLPSTLS FSSAPDEIQH PQIKFSEWKF KLFRVRSFEK APEEAQKEKD SSEGKPYLEQ 60
SPVVPEKPGG QNSILTQRAL KLHPKFSKKF HADGKSSDKA VHQARLRHFC RICGNRFKSD 120
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Protein Fasta Sequence



>IUUC-Mmu-064297|E3,RING|Mus musculus
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Nucleotide Sequence
(Fasta)
TTGCTATCTC TGTGGCATCG AGTGTTAACA ACCAAGCTGC AGACATTCTA GCACTCTGGC 60
CGGGAGGCCT GTGGAGCAAG GTAACTCTTG TGCTTTTCGT GCCTTGAGCC AAAACATTCA 120
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Nucleotide Fasta Sequence



>IUUC-Mmu-064297|E3,RING|Mus musculus
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Sequence Source Ensembl
Keyword

KW-0002--3D-structure
KW-0156--Chromatin regulator
KW-0181--Complete proteome
KW-0233--DNA recombination
KW-0238--DNA-binding
KW-0255--Endonuclease
KW-0378--Hydrolase
KW-1017--Isopeptide bond
KW-0479--Metal-binding
KW-0511--Multifunctional enzyme
KW-0540--Nuclease
KW-0539--Nucleus
KW-1185--Reference proteome
KW-0808--Transferase
KW-0832--Ubl conjugation
KW-0833--Ubl conjugation pathway
KW-0862--Zinc
KW-0863--Zinc-finger

Interpro

IPR024627--RAG1
IPR019485--RAG1_Znf
IPR023336--RAG_nonamer-bd_dom
IPR013087--Znf_C2H2_type
IPR018957--Znf_C3HC4_RING-type
IPR001841--Znf_RING
IPR013083--Znf_RING/FYVE/PHD
IPR017907--Znf_RING_CS

PROSITE

PS51487--NBD
PS51765--ZF_RAG1
PS00518--ZF_RING_1
PS50089--ZF_RING_2

Pfam

PF12940--RAG1
PF00097--zf-C3HC4
PF10426--zf-RAG1

SMART

SM00184--RING

Gene Ontology

GO:0005654--C:nucleoplasm
GO:0005634--C:nucleus
GO:0004519--F:endonuclease activity
GO:0042393--F:histone binding
GO:0046872--F:metal ion binding
GO:0042803--F:protein homodimerization activity
GO:0043565--F:sequence-specific DNA binding
GO:0061630--F:ubiquitin protein ligase activity
GO:0004842--F:ubiquitin-protein transferase activity
GO:0008270--F:zinc ion binding
GO:0002250--P:adaptive immune response
GO:0030183--P:B cell differentiation
GO:0006310--P:DNA recombination
GO:0010390--P:histone monoubiquitination
GO:0043154--P:negative regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0070233--P:negative regulation of T cell apoptotic process
GO:0070244--P:negative regulation of thymocyte apoptotic process
GO:0045582--P:positive regulation of T cell differentiation
GO:0002331--P:pre-B cell allelic exclusion
GO:0051865--P:protein autoubiquitination
GO:0045580--P:regulation of T cell differentiation
GO:0033077--P:T cell differentiation in thymus
GO:0043029--P:T cell homeostasis
GO:0048538--P:thymus development
GO:0033151--P:V(D)J recombination

KEGG mmu:19373
Orthology
iUUCD ID Species Identity E-value Score
IUUC-Aml-001206 Ailuropoda melanoleuca 88.97 0.00e+00 1903.00
IUUC-Apl-003271 Anas platyrhynchos 75.48 0.00e+00 1646.00
IUUC-Aca-004400 Anolis carolinensis 73.15 0.00e+00 1620.00
IUUC-Ame-011295 Astyanax mexicanus 59.02 0.00e+00 1212.00
IUUC-Bta-012421 Bos taurus 88.33 0.00e+00 1878.00
IUUC-Cja-019891 Callithrix jacchus 88.88 0.00e+00 1890.00
IUUC-Cfa-020740 Canis familiaris 81.40 0.00e+00 1773.00
IUUC-Cpo-021800 Cavia porcellus 88.33 0.00e+00 1832.00
IUUC-Csa-024203 Chlorocebus sabaeus 88.05 0.00e+00 1674.00
IUUC-Dre-028416 Danio rerio 58.81 0.00e+00 1209.00
IUUC-Dno-029101 Dasypus novemcinctus 87.45 0.00e+00 1853.00
IUUC-Eca-033385 Equus caballus 89.44 0.00e+00 1914.00
IUUC-Fca-036545 Felis catus 88.49 0.00e+00 1890.00
IUUC-Fal-037208 Ficedula albicollis 74.52 0.00e+00 1636.00
IUUC-Gmo-039622 Gadus morhua 54.45 0.00e+00 1168.00
IUUC-Gga-041182 Gallus gallus 74.54 0.00e+00 1598.00
IUUC-Gac-041682 Gasterosteus aculeatus 56.17 0.00e+00 1196.00
IUUC-Ggo-044510 Gorilla gorilla 89.74 0.00e+00 1911.00
IUUC-Hsa-045964 Homo sapiens 89.55 0.00e+00 1910.00
IUUC-Itr-048862 Ictidomys tridecemlineatus 89.55 0.00e+00 1894.00
IUUC-Lch-050041 Latimeria chalumnae 68.97 0.00e+00 1471.00
IUUC-Loc-052464 Lepisosteus oculatus 63.46 0.00e+00 1361.00
IUUC-Laf-053544 Loxodonta africana 87.54 0.00e+00 1878.00
IUUC-Mcc-054867 Macaca mulatta 89.26 0.00e+00 1906.00
IUUC-Meu-055986 Macropus eugenii 78.85 0.00e+00 1548.00
IUUC-Mga-059262 Meleagris gallopavo 75.02 0.00e+00 1615.00
IUUC-Mdo-062686 Monodelphis domestica 79.56 0.00e+00 1754.00
IUUC-Mpu-066027 Mustela putorius furo 88.40 0.00e+00 1863.00
IUUC-Mlu-067885 Myotis lucifugus 89.36 0.00e+00 1906.00
IUUC-Nle-070073 Nomascus leucogenys 89.26 0.00e+00 1905.00
IUUC-Ont-071400 Oreochromis niloticus 59.35 0.00e+00 1269.00
IUUC-Oan-072920 Ornithorhynchus anatinus 93.15 0.00e+00 775.00
IUUC-Ocu-074616 Oryctolagus cuniculus 89.16 0.00e+00 1886.00
IUUC-Ola-086828 Oryzias latipes 59.27 0.00e+00 1245.00
IUUC-Oga-088675 Otolemur garnettii 92.25 2.00e-151 527.00
IUUC-Oar-090380 Ovis aries 87.92 0.00e+00 1892.00
IUUC-Ptr-090648 Pan troglodytes 89.74 0.00e+00 1917.00
IUUC-Pan-092036 Papio anubis 89.07 0.00e+00 1901.00
IUUC-Psi-093130 Pelodiscus sinensis 78.46 0.00e+00 1721.00
IUUC-Pfo-097273 Poecilia formosa 59.17 0.00e+00 1221.00
IUUC-Pca-100134 Procavia capensis 92.74 0.00e+00 1422.00
IUUC-Rno-105632 Rattus norvegicus 96.35 0.00e+00 2076.00
IUUC-Sha-107238 Sarcophilus harrisii 79.75 0.00e+00 1758.00
IUUC-Sar-113591 Sorex araneus 77.26 0.00e+00 1615.00
IUUC-Ssc-115720 Sus scrofa 87.54 0.00e+00 1865.00
IUUC-Tgu-117030 Taeniopygia guttata 74.71 0.00e+00 1617.00
IUUC-Tru-117669 Takifugu rubripes 57.46 0.00e+00 1146.00
IUUC-Tsy-119578 Tarsius syrichta 85.71 0.00e+00 1841.00
IUUC-Tni-120073 Tetraodon nigroviridis 58.25 0.00e+00 1193.00
IUUC-Tbe-128029 Tupaia belangeri 80.76 0.00e+00 919.00
IUUC-Ttr-128677 Tursiops truncatus 91.33 0.00e+00 794.00
IUUC-Vpa-130346 Vicugna pacos 93.91 0.00e+00 876.00
IUUC-Xtr-132442 Xenopus tropicalis 86.08 3.00e-99 353.00
Created Date 25-Jun-2017

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