Structure of PDB 6oem Chain A Binding Site BS02

Receptor Information
>6oem Chain A (length=606) Species: 10090 (Mus musculus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
TRRAQKHRLRELKIQVKEFADKEEGGDVKAVCLTLFLLALRARNEHRQAD
ELEAIMQGRGSGLQPAVCLAIRVNTFLSCSQYHKMYRTVKAITGRQIFQP
LHALRNAEKVLLPGYHPFEWQPPLKNVSSRTDVGIIDGLSGLASSVDEYP
VDTIAKRFRYDSALVSALMDMEEDILEGMRSQDLDDYLNGPFTVVVKESC
DGMGDVSEKHGSGPAVPEKAVRFSFTVMRITIEHGSQNVKVFEEPKPNSE
LCCKPLCLMLADESDHETLTAILSPLIAEREAMKSSELTLEMGGIPRTFK
FIFRGTGYDEKLVREVEGLEASGSVYICTLCDTTRLEASQNLVFHSITRS
HAENLQRYEVWRSNPYHESVEELRDRVKGVSAKPFIETVPSIDALHCDIG
NAAEFYKIFQLEIGEVYKHPNASKEERKRWQATLDKHLRKRMNLKPIMRM
NGNFARKLMTQETVDAVCELIPSEERHEALRELMDLYLKMKPVWRSSCPA
KECPESLCQYSFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVPEIIER
DGSIGAWANQSGNKLFRRFRKMNARQSKCYEMEDVLKHHWLYTSKYLQKF
MNAHNA
Ligand information
>6oem Chain I (length=46) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
gatctggcctgtcttacacagtgatacagcccttaacaaaaacccg
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB6oem Cutting antiparallel DNA strands in a single active site.
Resolution3.6 Å
Binding residue
(original residue number in PDB)		A441 I846 R848 N850 N852 Q962
Binding residue
(residue number reindexed from 1)		A42 I447 R449 N451 N453 Q560
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
View graph for
Cellular Component
External links
PDB RCSB:6oem, PDBe:6oem, PDBj:6oem
PDBsum6oem
PubMed32015552
UniProtP15919|RAG1_MOUSE V(D)J recombination-activating protein 1 (Gene Name=Rag1)

[Back to BioLiP]