Structure of PDB 6dbj Chain A Binding Site BS06

Receptor Information
>6dbj Chain A (length=552) Species: 7955,83333 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
FGLHPAVCLAIRVNTFLSCSQYHKMYRTVKATSGRQIFQPLHTLRNAEKE
LLPGFHQFEWQPALKNVSTSWDVGIIDGLSGWTVSVDDVPADTISRRFRY
DVALVSALKDLEEDIMEGLRERALDDSMCTSGFTVVVKESCDGMGDVSEK
HGSGPAVPEKAVRFSFTIMSISIRLEGEDDGITIFQEQKPNSELSCRPLC
LMFVDESDHETLTAILGPVVAERKAMMESRLIISVGGLLRSFRFFFRGTG
YDEKMVREMEGLEASGSTYICTLCDSTRAEASQNMVLHSITRSHDENLER
YEIWRKNPFSESADELRDRVKGVSAKPFMETQPTLDALHCDIGNATEFYK
IFQDEIGEVYQKPNPSREERRRWRSTLDKQLRKKMKLKPVMRMNGNYARR
LMTREAVEAVCELVPSEERREALLKLMDLYLQMKPVWRSTCPSRDCPDQL
CQYSYNSQQFADLLSSMFKYRYDGKITNYLHKTLAHVPEIVERDGSIGAW
ASEGNESGNKLFRRFRKMNARQSKTFELEDILKHHWLYTSKYLQKFMEAH
KN
Ligand information
Ligand IDZN
InChIInChI=1S/Zn/q+2
InChIKeyPTFCDOFLOPIGGS-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Zn++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Zn+2]
FormulaZn
NameZINC ION
ChEMBLCHEMBL1236970
DrugBankDB14532
ZINC
PDB chain6dbj Chain A Residue 1101 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
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]
PDB6dbj DNA melting initiates the RAG catalytic pathway.
Resolution3.0 Å
Binding residue
(original residue number in PDB)		C749 C752 H959 H964
Binding residue
(residue number reindexed from 1)		C271 C274 H481 H486
Annotation score4
Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
3.1.-.-
Gene Ontology
Molecular Function
GO:0004519 endonuclease activity
GO:0005515 protein binding
GO:0015144 carbohydrate transmembrane transporter activity
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
GO:1901982 maltose binding
Biological Process
GO:0006974 DNA damage response
GO:0008643 carbohydrate transport
GO:0015768 maltose transport
GO:0033151 V(D)J recombination
GO:0034219 carbohydrate transmembrane transport
GO:0034289 detection of maltose stimulus
GO:0042956 maltodextrin transmembrane transport
GO:0055085 transmembrane transport
GO:0060326 cell chemotaxis
Cellular Component
GO:0016020 membrane
GO:0030288 outer membrane-bounded periplasmic space
GO:0042597 periplasmic space
GO:0043190 ATP-binding cassette (ABC) transporter complex
GO:0055052 ATP-binding cassette (ABC) transporter complex, substrate-binding subunit-containing
GO:1990060 maltose transport complex

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6dbj, PDBe:6dbj, PDBj:6dbj
PDBsum6dbj
PubMed30061602
UniProtO13033|RAG1_DANRE V(D)J recombination-activating protein 1 (Gene Name=rag1);
P0AEX9|MALE_ECOLI Maltose/maltodextrin-binding periplasmic protein (Gene Name=malE)

[Back to BioLiP]