Structure of PDB 6dbl Chain C Binding Site BS05

Receptor Information
>6dbl Chain C (length=616) Species: 7955,83333 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GGRPRQHLLSLTRRAQKHRLRDLKNQVKTFAEKEEGGDVKSVCLTLFLLA
LRAGNEHKQADELEAMMQGRGFGLHPAVCLAIRVNTFLSCSQYHKMYRTV
KATSGRQIFQPLHTLRNAEKELLPGFHQFEWQPALKNVSTSWDVGIIDGL
SGWTVSVDDVPADTISRRFRYDVALVSALKDLEEDIMEGLRERALDDSMC
TSGFTVVVKESCDGMGDVSEKVPEKAVRFSFTIMSISIRLEGEDDGITIF
QEQKPNSELSCRPLCLMFVDESDHETLTAILGPVVAERKAMMESRLIISV
GGLLRSFRFFFRGTGYDEKMVREMEGLEASGSTYICTLCDSTRAEASQNM
VLHSITRSHDENLERYEIWRKNPFSESADELRDRVKGVSAKPFMETQPTL
DALHCDIGNATEFYKIFQDEIGEVYQKPNPSREERRRWRSTLDKQLRKKM
KLKPVMRMNGNYARRLMTREAVEAVCELVPSEERREALLKLMDLYLQMKP
VWRSTCPSRDCPDQLCQYSYNSQQFADLLSSMFKYRYDGKITNYLHKTLA
HVPEIVERDGSIGAWASEGNESGNKLFRRFRKMNARQSKTFELEDILKHH
WLYTSKYLQKFMEAHK
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 chain6dbl 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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PDB6dbl DNA melting initiates the RAG catalytic pathway.
Resolution5.0 Å
Binding residue
(original residue number in PDB)		C749 L751 C752 H959 H964
Binding residue
(residue number reindexed from 1)		C336 L338 C339 H546 H551
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

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Molecular Function
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Biological Process
View graph for
Cellular Component
External links
PDB RCSB:6dbl, PDBe:6dbl, PDBj:6dbl
PDBsum6dbl
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)

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