Structure of PDB 3k70 Chain E Binding Site BS02

Receptor Information
>3k70 Chain E (length=1155) Species: 83333 (Escherichia coli K-12) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
DVAETLDPLRLPLQGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPR
PLTVEELLVVTFTEAATAELRGRIRSNIHELRIACLRETTDNPLYERLLE
EIDDKAQAAQWLLLAERQMDEAAVFTIHGFCQRMLNLNAFESGMLFEQQL
IEDESLLRYQACADFWRRHCYPLPREIAQVVFETWKGPQALLRDINRYLQ
GEAPVIKAPPPDDETLASRHAQIVARIDTVKQQWRDAVGELDALESSGID
RRKFNRSNQAKWIDKISAWAEEETNSYQLPESLEKPRHPLFEAIDQLLAE
PLSIRDLVITRALAEIRETVAREKRRRGELGFDDMLSRLDSALRSESGEV
LAAAIRTRFPVAMIDEFQDTDPQQYRIFRRIWHHQPETALLLIGDPKQAI
YAFRGADIFTYMKARSEVHAHYTLDTNWRSAPGMVNSVNKLFSQTDDAFM
FREIPFIPVKSAGKNQALRFVFKGETQPAMKMWLMEGESCGVGDYQSTMA
QVCAAQIRDWLQAGQRGEALLMNGDDARPVRASDISVLVRSRQEAAQVRD
ALTLLEIPSVYLSNRDSVFETLEAQEMLWLLQAVMTPERENTLRSALATS
MMGLNALDIETLNNDEHAWDVVVEEFDGYRQIWRKRGVMPMLRALMSARN
IAENLLATAGGERRLTDILHISELLQEAGTQLESEHALVRWLSQHILEPD
SNASSQQMRLESDKHLVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYH
DRHSFEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCSLGVAP
LVRRRGDKKGDTDVHQSALGRLLQKGEPQDAAGLRTCIEALCDDDIAWQT
AQTGDNQPWQVNDVSTAELNAKTLQRLPGDNWRVTSYSGLQQRGHGIAQD
LMPRLDVDAAGVASVVEEPTLTPHQFPRGASPGTFLHSLFEDLDFTQPVD
PNWVREKLELGGFESQWEPVLTEWITAVLQAPLNETGVSLSQLSARNKQV
EMEFYLPISEPLIASQLDTLIRQFDPLSAGCPPLEFMQVRGMLKGFIDLV
FRHEGRYYLLDYKSNWLGEDSSAYTQQAMAAAMQAHRYDLQYQLYTLALH
RYLRHRIADYDYEHHFGGVIYLFLRGVDKEHPQQGIYTTRPNAGLIALMD
EMFAG
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 chain3k70 Chain E Residue 4000 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB3k70 DNA binding to RecD: role of the 1B domain in SF1B helicase activity.
Resolution3.59 Å
Binding residue
(original residue number in PDB)		H956 D1067 D1080 Y1081
Binding residue
(residue number reindexed from 1)		H937 D1048 D1061 Y1062
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) K29
Catalytic site (residue number reindexed from 1) K27
Enzyme Commision number 3.1.11.5: exodeoxyribonuclease V.
5.6.2.4: DNA 3'-5' helicase.
Gene Ontology
Molecular Function
GO:0000287 magnesium ion binding
GO:0003677 DNA binding
GO:0003678 DNA helicase activity
GO:0004386 helicase activity
GO:0004520 DNA endonuclease activity
GO:0004527 exonuclease activity
GO:0005515 protein binding
GO:0005524 ATP binding
GO:0008094 ATP-dependent activity, acting on DNA
GO:0008854 exodeoxyribonuclease V activity
GO:0015616 DNA translocase activity
GO:0016787 hydrolase activity
GO:0016853 isomerase activity
GO:0016887 ATP hydrolysis activity
GO:0043138 3'-5' DNA helicase activity
GO:0046872 metal ion binding
Biological Process
GO:0000724 double-strand break repair via homologous recombination
GO:0000725 recombinational repair
GO:0006281 DNA repair
GO:0006310 DNA recombination
GO:0009314 response to radiation
GO:0032508 DNA duplex unwinding
GO:0044355 clearance of foreign intracellular DNA
Cellular Component
GO:0005829 cytosol
GO:0009338 exodeoxyribonuclease V complex

View graph for
Molecular Function
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Biological Process
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Cellular Component
External links
PDB RCSB:3k70, PDBe:3k70, PDBj:3k70
PDBsum3k70
PubMed18668125
UniProtP08394|RECB_ECOLI RecBCD enzyme subunit RecB (Gene Name=recB)

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