Structure of PDB 6dbt Chain C Binding Site BS06

Receptor Information
>6dbt Chain C (length=614) Species: 7955,83333 [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
GGRPRQHLLSLTRRAQKHRLRDLKNQVKTFAEKEEGGDVKSVCLTLFLLA
LRAGNEHKQADELEAMMQGRGFGLHPAVCLAIRVNTFLSCSQYHKMYRTV
KATSGRQIFQPLHTLRNAEKELLPGFHQFEWQPALKNVSTSWDVGIIDGL
SGWTVSVDDVPADTISRRFRYDVALVSALKDLEEDIMEGLRERALDDSMC
TSGFTVVVKESCDGMGDVSEKPEKAVRFSFTIMSISIRLEGEDDGITIFQ
EQKPNSELSCRPLCLMFVDESDHETLTAILGPVVAERKAMMESRLIISVG
GLLRSFRFFFRGTGYDEKMVREMEGLEASGSTYICTLCDSTRAEASQNMV
LHSITRSHDENLERYEIWRKNPFSESADELRDRVKGVSAKPFMETQPTLD
ALHCDIGNATEFYKIFQDEIGEVYQKPNPSREERRRWRSTLDKQLRKKMK
LKPVMRMNGNYARRLMTREAVEAVCELVPSEERREALLKLMDLYLQMKPV
WRSTCPSRDCPDQLCQYSYNSQQFADLLSSMFKYRYDGKITNYLHKTLAH
VPEIVERDGSIGAWASEGNESGNKLFRRFRKMNARQSKTFELEDILKHHW
LYTSKYLQKFMEAH
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 chain6dbt Chain C Residue 1102 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB6dbt DNA melting initiates the RAG catalytic pathway.
Resolution4.3 Å
Binding residue
(original residue number in PDB)		D620 E984
Binding residue
(residue number reindexed from 1)		D213 E570
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:6dbt, PDBe:6dbt, PDBj:6dbt
PDBsum6dbt
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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