Structure of PDB 6dbu Chain C

Receptor sequence
>6dbuC (length=543) Species: 7955,83333 [Search protein sequence]
FGLHPAVCLAIRVNTFLSCSQYHKMYRTVKATSGRQIFQPLHTLRNAEKE
LLPGFHQFEWQPALKNVSTSWDVGIIDGLSGWTVSVDDVPADTISRRFRY
DVALVSALKDLEEDIMEGLRERALDDSMCTSGFTVVVKESCDGMGDVSEK
PEKAVRFSFTIMSISIRLEGEDDGITIFQEQKPNSELSCRPLCLMFVDES
DHETLTAILGPVVAERKAMMESRLIISVGGLLRSFRFFFRGTGYDEKMVR
EMEGLEASGSTYICTLCDSTRAEASQNMVLHSITRSHDENLERYEIWRKN
PFSESADELRDRVKGVSAKPFMETQPTLDALHCDIGNATEFYKIFQDEIG
EVYQKPNPSREERRRWRSTLDKQLRKKMKLKPVMRMNGNYARRLMTREAV
EAVCELVPSEERREALLKLMDLYLQMKPVWRSTCPSRDCPDQLCQYSYNS
QQFADLLSSMFKYRYDGKITNYLHKTLAHVPEIVERDGSIGAWASEGNES
GNKLFRRFRKMNARQSKTFELEDILKHHWLYTSKYLQKFMEAH
3D structure
PDB6dbu DNA melting initiates the RAG catalytic pathway.
ChainC
Resolution3.9 Å
3D
structure
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Enzymatic activity
Enzyme Commision number 2.3.2.27: RING-type E3 ubiquitin transferase.
3.1.-.-
Interaction with ligand
Site
#		 Ligand Ligand
chain		 Binding residues on receptor
(original residue number in PDB)		 Binding residues on receptor
(residue number reindexed from 1)		 Binding affinity
BS01 dna C M869 R870 N872 K988 M384 R385 N387 K503
BS02 dna C G623 D624 S626 R870 G145 D146 S148 R385
BS03 dna C C497 R523 N997 A998 R999 C19 R45 N512 A513 R514
BS04 dna C Y504 R505 H520 K628 S1001 Y26 R27 H42 K150 S516
BS05 ZN C C749 C752 H959 H964 C264 C267 H474 H479
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
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Cellular Component
External links
PDB RCSB:6dbu, PDBe:6dbu, PDBj:6dbu
PDBsum6dbu
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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