Structure of PDB 3k70 Chain E

Receptor sequence

>3k70E (length=1155) Species: 83333 (Escherichia coli K-12)

DVAETLDPLRLPLQGERLIEASAGTGKTFTIAALYLRLLLGLGGSAAFPR
PLTVEELLVVTFTEAATAELRGRIRSNIHELRIACLRETTDNPLYERLLE
EIDDKAQAAQWLLLAERQMDEAAVFTIHGFCQRMLNLNAFESGMLFEQQL
IEDESLLRYQACADFWRRHCYPLPREIAQVVFETWKGPQALLRDINRYLQ
GEAPVIKAPPPDDETLASRHAQIVARIDTVKQQWRDAVGELDALESSGID
RRKFNRSNQAKWIDKISAWAEEETNSYQLPESLEKPRHPLFEAIDQLLAE
PLSIRDLVITRALAEIRETVAREKRRRGELGFDDMLSRLDSALRSESGEV
LAAAIRTRFPVAMIDEFQDTDPQQYRIFRRIWHHQPETALLLIGDPKQAI
YAFRGADIFTYMKARSEVHAHYTLDTNWRSAPGMVNSVNKLFSQTDDAFM
FREIPFIPVKSAGKNQALRFVFKGETQPAMKMWLMEGESCGVGDYQSTMA
QVCAAQIRDWLQAGQRGEALLMNGDDARPVRASDISVLVRSRQEAAQVRD
ALTLLEIPSVYLSNRDSVFETLEAQEMLWLLQAVMTPERENTLRSALATS
MMGLNALDIETLNNDEHAWDVVVEEFDGYRQIWRKRGVMPMLRALMSARN
IAENLLATAGGERRLTDILHISELLQEAGTQLESEHALVRWLSQHILEPD
SNASSQQMRLESDKHLVQIVTIHKSKGLEYPLVWLPFITNFRVQEQAFYH
DRHSFEAVLDLNAAPESVDLAEAERLAEDLRLLYVALTRSVWHCSLGVAP
LVRRRGDKKGDTDVHQSALGRLLQKGEPQDAAGLRTCIEALCDDDIAWQT
AQTGDNQPWQVNDVSTAELNAKTLQRLPGDNWRVTSYSGLQQRGHGIAQD
LMPRLDVDAAGVASVVEEPTLTPHQFPRGASPGTFLHSLFEDLDFTQPVD
PNWVREKLELGGFESQWEPVLTEWITAVLQAPLNETGVSLSQLSARNKQV
EMEFYLPISEPLIASQLDTLIRQFDPLSAGCPPLEFMQVRGMLKGFIDLV
FRHEGRYYLLDYKSNWLGEDSSAYTQQAMAAAMQAHRYDLQYQLYTLALH
RYLRHRIADYDYEHHFGGVIYLFLRGVDKEHPQQGIYTTRPNAGLIALMD
EMFAG

3D structure

• PDB: 3k70 DNA binding to RecD: role of the 1B domain in SF1B helicase activity.
• Chain: E
• Resolution: 3.59 Å

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.

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	E	F64 T65 E66 T128 S250 I252 D253 R254 F422 R423 G510 V511 S560 R561 Q562 R584 T740 K743 R761 R822 R824 D826	F62 T63 E64 T126 S247 I249 D250 R251 F403 R404 G491 V492 S541 R542 Q543 R565 T721 K724 R742 R803 R805 D807
BS02	CA	E	H956 D1067 D1080 Y1081	H937 D1048 D1061 Y1062

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

External links

• PDB: RCSB:3k70, PDBe:3k70, PDBj:3k70
• PDBsum: 3k70
• PubMed: 18668125
• UniProt: P08394|RECB_ECOLI RecBCD enzyme subunit RecB (Gene Name=recB)