Structure of PDB 6dbi Chain D Binding Site BS01

Receptor Information
>6dbi Chain D (length=351) Species: 7955 (Danio rerio) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MSLQPLTAVNCGSLVQPGFSLLDLEGDVYLFGQKGWPKRSCPTGIFGVRI
KKGELKLRAISFSNNSSYLPPLRCPAIAHFEAQDGKPECYLIHGGRTPNN
ELSSSLYMLSVDSRGCNRKVTLRCEEKELVGDVPSARYGHTLSVINSRGK
TACVLFGGRSYMPPTERTTQNWNSVVDCPPQVYLIDLEFGCCTAHTLPEL
TDGQSFHVALARQDCVYFLGGHILSSDCRPSRLIRLHVELLLGSPVLTCT
ILHEGLTITSAIASPIGYHEYIIFGGYQSETQKRMECTYVGLDDVGVHME
SREPPQWTSEISHSRTWFGGSLGKGTALVAIPSEGNPTPPEAYHFYQVSF
Q
Ligand information
>6dbi Chain G (length=61) [Search DNA sequence] [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
ctgcagggtttttgtacagccagacagtggagtactaccactgtgtaaga
caggccagatc
Receptor-Ligand Complex Structure
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PDB6dbi DNA melting initiates the RAG catalytic pathway.
Resolution3.4 Å
Binding residue
(original residue number in PDB)		K38 R39
Binding residue
(residue number reindexed from 1)		K38 R39
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0005515 protein binding
GO:0005546 phosphatidylinositol-4,5-bisphosphate binding
GO:0005547 phosphatidylinositol-3,4,5-trisphosphate binding
GO:0008270 zinc ion binding
GO:0035064 methylated histone binding
GO:0035091 phosphatidylinositol binding
GO:0043325 phosphatidylinositol-3,4-bisphosphate binding
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding
GO:0080025 phosphatidylinositol-3,5-bisphosphate binding
GO:1990238 double-stranded DNA endonuclease activity
Biological Process
GO:0006310 DNA recombination
GO:0006325 chromatin organization
GO:0030098 lymphocyte differentiation
GO:0030183 B cell differentiation
GO:0030217 T cell differentiation
GO:0033077 T cell differentiation in thymus
GO:0033151 V(D)J recombination
GO:0033152 immunoglobulin V(D)J recombination
GO:0048534 hematopoietic or lymphoid organ development
GO:0048538 thymus development
GO:0065004 protein-DNA complex assembly
Cellular Component
GO:0005634 nucleus
GO:0097519 DNA recombinase complex
GO:1905347 endodeoxyribonuclease complex

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Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:6dbi, PDBe:6dbi, PDBj:6dbi
PDBsum6dbi
PubMed30061602
UniProtO13034|RAG2_DANRE V(D)J recombination-activating protein 2 (Gene Name=rag2)

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