Structure of PDB 6oeq Chain C Binding Site BS05

Receptor Information
>6oeq Chain C (length=612) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
RQHLLSLTRRAQKHRLRELKIQVKEFADKEEGGDVKAVCLTLFLLALRAR
NEHRQADELEAIMQGRGSGLQPAVCLAIRVNTFLSCSQYHKMYRTVKAIT
GRQIFQPLHALRNAEKVLLPGYHPFEWQPPLKNVSSRTDVGIIDGLSGLA
SSVDEYPVDTIAKRFRYDSALVSALMDMEEDILEGMRSQDLDDYLNGPFT
VVVKESCDGMGDVSEKPAVPEKAVRFSFTVMRITIEHGSQNVKVFEEPKP
NSELCCKPLCLMLADESDHETLTAILSPLIAEREAMKSSELTLEMGGIPR
TFKFIFRGTGYDEKLVREVEGLEASGSVYICTLCDTTRLEASQNLVFHSI
TRSHAENLQRYEVWRSNPYHESVEELRDRVKGVSAKPFIETVPSIDALHC
DIGNAAEFYKIFQLEIGEVYKHPNASKEERKRWQATLDKHLRKRMNLKPI
MRMNGNFARKLMTQETVDAVCELIPSEERHEALRELMDLYLKMKPVWRSS
CPAKECPESLCQYSFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVPEI
IERDGSIGAWASEGNQSGNKLFRRFRKMNARQSKCYEMEDVLKHHWLYTS
KYLQKFMNAHNA
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain6oeq Chain C Residue 1101 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6oeq Cutting antiparallel DNA strands in a single active site.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		D600 D708
Binding residue
(residue number reindexed from 1)		D208 D312
Annotation score4
Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
3.1.-.-
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0004519 endonuclease activity
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0042393 histone binding
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
Biological Process
GO:0002250 adaptive immune response
GO:0002331 pre-B cell allelic exclusion
GO:0006310 DNA recombination
GO:0006325 chromatin organization
GO:0008542 visual learning
GO:0030183 B cell differentiation
GO:0033077 T cell differentiation in thymus
GO:0033151 V(D)J recombination
GO:0043029 T cell homeostasis
GO:0045580 regulation of T cell differentiation
GO:0045582 positive regulation of T cell differentiation
GO:0048538 thymus development
GO:0051865 protein autoubiquitination
GO:0070233 negative regulation of T cell apoptotic process
GO:0070244 negative regulation of thymocyte apoptotic process
GO:2000822 regulation of behavioral fear response
Cellular Component
GO:0005634 nucleus
GO:0005654 nucleoplasm

View graph for
Molecular Function
View graph for
Biological Process
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Cellular Component
External links
PDB RCSB:6oeq, PDBe:6oeq, PDBj:6oeq
PDBsum6oeq
PubMed32015552
UniProtP15919|RAG1_MOUSE V(D)J recombination-activating protein 1 (Gene Name=Rag1)

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