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Basic Information Integrated Annotations

Tag Content
iUUCD ID IUUC-Hsa-045964
UUCD1 version UUC-HoS-00056
Ensembl Protein ID ENSP00000299440.5
UniProt Accession P15918; E9PPC4; Q8IY72; Q8NER2; RAG1_HUMAN
Genbank Protein ID AAA60248.1; AAM77798.1; AAH37344.1
Protein Name V(D)J recombination-activating protein 1; RING finger protein 74; Endonuclease RAG1; E3 ubiquitin-protein ligase RAG1; RING-type E3 ubiquitin transferase RAG1
Genbank Nucleotide ID M29474; AY130302; AC061999
Gene Name RAG1; RNF74
Ensembl Information
Ensembl Gene ID Ensembl Transcript ID Ensembl Protein ID
ENSG00000166349.9 ENST00000534663.1 ENSP00000434610.1
ENSG00000166349.9 ENST00000299440.5 ENSP00000299440.5
Annotation
Cancer Mutation
TCGAICGCCOSMICCGAP
IntOGen
Single Nucleotide Polymorphisms (SNP)
dbSNP
mRNA Expression
GEOArrayExpressTCGAICGC
COSMICHPM
DNA & RNA Element
UTRdbAREsitemiRTarBasemicroRNA
TRANSFACmiRWalkTargetScanRepTar
miRcodeRAID2
Protein-protein Interaction
IIDiRefIndexPINAHINT
MenthaInWeb_IM
Disease-associated Information
ClinVarGWASdbOMIM
Post-translational Modifications (PTMs)
CPLMdbPAFPhosphositePlus
DNA Methylation
MethyCancerTCGAICGCCOSMIC
Protein Expression/Proteomics
THPAGPMDB
Status Reviewed
Details
Family Domain References (PMIDs)
E3 activity/RING/RING RING 19118899; 21256161
Reviewed
Classification
Family Identity E-value Score Source Orthology
E3 activity/RING/RING 89.55 0.00e+00 1910.00 IUUC-Mmu-064297
Organism Homo sapiens
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 (By similarity).
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 (By similarity).
Protein Sequence
(Fasta)
MAASFPPTLG LSSAPDEIQH PHIKFSEWKF KLFRVRSFEK TPEEAQKEKK DSFEGKPSLE 60
QSPAVLDKAD GQKPVPTQPL LKAHPKFSKK FHDNEKARGK AIHQANLRHL CRICGNSFRA 120
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Protein Fasta Sequence



>IUUC-Hsa-045964|E3,RING|Homo sapiens
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Nucleotide Sequence
(Fasta)
ATTACCTGCT CTTCCCCTTC ATCCGGTCCA AGGGAGTCAG CCCTTGCCTT AAATATTTCT 60
TTGAATTTCC TGCCAAGAAC ACCAGCGCTT TGTCTTTCTC TGTCATGGGA AAACTATTTT 120
It may take some time, please wait.

Nucleotide Fasta Sequence



>IUUC-Hsa-045964|E3,RING|Homo sapiens
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Sequence Source Ensembl
Keyword

KW-0025--Alternative splicing
KW-0156--Chromatin regulator
KW-0181--Complete proteome
KW-0225--Disease mutation
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-0621--Polymorphism
KW-1185--Reference proteome
KW-0705--SCID
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:0003677--F:DNA binding
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:0006955--P:immune response
GO:0043154--P:negative regulation of cysteine-type endopeptidase activity involved in 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: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 hsa:5896
Orthology
iUUCD ID Species Identity E-value Score
IUUC-Aml-001206 Ailuropoda melanoleuca 91.85 0.00e+00 1949.00
IUUC-Apl-003271 Anas platyrhynchos 77.10 0.00e+00 1679.00
IUUC-Aca-004400 Anolis carolinensis 74.64 0.00e+00 1642.00
IUUC-Ame-011295 Astyanax mexicanus 58.76 0.00e+00 1212.00
IUUC-Bta-012421 Bos taurus 91.86 0.00e+00 1947.00
IUUC-Cja-019891 Callithrix jacchus 96.16 0.00e+00 2004.00
IUUC-Cfa-020740 Canis familiaris 83.70 0.00e+00 1822.00
IUUC-Cpo-021800 Cavia porcellus 90.48 0.00e+00 1850.00
IUUC-Csa-024203 Chlorocebus sabaeus 97.12 0.00e+00 1828.00
IUUC-Dre-028416 Danio rerio 59.04 0.00e+00 1210.00
IUUC-Dno-029101 Dasypus novemcinctus 91.44 0.00e+00 1912.00
IUUC-Eca-033385 Equus caballus 93.19 0.00e+00 1961.00
IUUC-Fca-036545 Felis catus 91.75 0.00e+00 1958.00
IUUC-Fal-037208 Ficedula albicollis 75.67 0.00e+00 1668.00
IUUC-Gmo-039622 Gadus morhua 55.08 0.00e+00 1174.00
IUUC-Gga-041182 Gallus gallus 76.14 0.00e+00 1622.00
IUUC-Gac-041682 Gasterosteus aculeatus 57.43 0.00e+00 1211.00
IUUC-Ggo-044510 Gorilla gorilla 99.14 0.00e+00 2087.00
IUUC-Itr-048862 Ictidomys tridecemlineatus 92.33 0.00e+00 1941.00
IUUC-Lch-050041 Latimeria chalumnae 69.98 0.00e+00 1483.00
IUUC-Loc-052464 Lepisosteus oculatus 63.85 0.00e+00 1372.00
IUUC-Laf-053544 Loxodonta africana 92.04 0.00e+00 1949.00
IUUC-Mcc-054867 Macaca mulatta 97.99 0.00e+00 2066.00
IUUC-Meu-055986 Macropus eugenii 82.69 0.00e+00 1620.00
IUUC-Mga-059262 Meleagris gallopavo 76.62 0.00e+00 1636.00
IUUC-Mdo-062686 Monodelphis domestica 82.33 0.00e+00 1805.00
IUUC-Mmu-064297 Mus musculus 89.84 0.00e+00 1951.00
IUUC-Mpu-066027 Mustela putorius furo 92.04 0.00e+00 1932.00
IUUC-Mlu-067885 Myotis lucifugus 92.81 0.00e+00 1970.00
IUUC-Nle-070073 Nomascus leucogenys 98.37 0.00e+00 2075.00
IUUC-Ont-071400 Oreochromis niloticus 60.61 0.00e+00 1270.00
IUUC-Oan-072920 Ornithorhynchus anatinus 94.67 0.00e+00 786.00
IUUC-Ocu-074616 Oryctolagus cuniculus 93.29 0.00e+00 1947.00
IUUC-Ola-086828 Oryzias latipes 59.29 0.00e+00 1241.00
IUUC-Oga-088675 Otolemur garnettii 94.46 3.00e-155 540.00
IUUC-Oar-090380 Ovis aries 91.37 0.00e+00 1957.00
IUUC-Ptr-090648 Pan troglodytes 99.62 0.00e+00 2096.00
IUUC-Pan-092036 Papio anubis 97.79 0.00e+00 2060.00
IUUC-Psi-093130 Pelodiscus sinensis 81.11 0.00e+00 1771.00
IUUC-Pfo-097273 Poecilia formosa 59.17 0.00e+00 1219.00
IUUC-Pca-100134 Procavia capensis 85.82 0.00e+00 1795.00
IUUC-Rno-105632 Rattus norvegicus 90.12 0.00e+00 1950.00
IUUC-Sha-107238 Sarcophilus harrisii 81.85 0.00e+00 1799.00
IUUC-Sar-113591 Sorex araneus 79.20 0.00e+00 1640.00
IUUC-Ssc-115720 Sus scrofa 91.66 0.00e+00 1928.00
IUUC-Tgu-117030 Taeniopygia guttata 76.34 0.00e+00 1648.00
IUUC-Tru-117669 Takifugu rubripes 57.13 0.00e+00 1151.00
IUUC-Tsy-119578 Tarsius syrichta 88.78 0.00e+00 1905.00
IUUC-Tni-120073 Tetraodon nigroviridis 58.04 0.00e+00 1198.00
IUUC-Tbe-128029 Tupaia belangeri 87.05 0.00e+00 991.00
IUUC-Ttr-128677 Tursiops truncatus 93.98 0.00e+00 811.00
IUUC-Vpa-130346 Vicugna pacos 95.26 0.00e+00 886.00
IUUC-Xtr-132442 Xenopus tropicalis 85.57 3.00e-100 357.00
Created Date 25-Jun-2017

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