Structure of PDB 8oo6 Chain A

Receptor sequence

>8oo6A (length=604) Species: 866768 (Escherichia coli 'BL21-Gold(DE3)pLysS AG')

GPHDNYVTILDEETLKAWIAKLEKAPVFAFDTETDSLDNISANLVGLSFA
IEPGVAAYIPVAHDYLDAPDQISRERALELLKPLLEDEKALKVGQNLKYD
RGILANYGIELRGIAFDTMLESYILNSVAGRHDMDSLAERWLKHKTITFE
EIAGKGKNQLTFNQIALEEAGRYAAEDADVTLQLHLKMWPDLQKHKGPLN
VFENIEMPLVPVLSRIERNGVKIDPKVLHNHSEELTLRLAELEKKAHEIA
GEEFNLSSTKQLQTILFEKQGIKPLKKTPGGAPSTSEEVLEELALDYPLP
KVILEYRGLAKLKSTYTDKLPLMINPKTGRVHTSYHQAVTATGRLSSTDP
NLQNIPVRNEEGRRIRQAFIAPEDYVIVSADYSQIELRIMAHLSRDKGLL
TAFAEGKDIHRATAAEVFGLPLETVTSEQRRSAKAINFGLIYGMSAFGLA
RQLNIPRKEAQKYMDLYFERYPGVLEYMERTRAQAKEQGYVETLDGRRLY
LPDIKSSNGARRAAAERAAINAPMQGTAADIIKRAMIAVDAWLQAEQPRV
RMIMQVHDELVFEVHKDDVDAVAKQIHQLMENCTRLDVPLLVEVGSGENW
DQAH

3D structure

• PDB: 8oo6 A four-point molecular handover during Okazaki maturation.
• Chain: A
• Resolution: 4.3 Å

Enzymatic activity

• Enzyme Commision number: 2.7.7.7: DNA-directed DNA polymerase.

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	A	N579 S581 S582 Q585 S638 K643 T672 N675 Y766 M768 S769 F771 R841 N845	N255 S257 S258 Q261 S314 K319 T348 N351 Y442 M444 S445 F447 R517 N521
BS02	dna	A	T602 S608 T609 E611 R631 Y640 N678 P680 R682 E710 K758 A759 F762 H881 D882	T278 S284 T285 E287 R307 Y316 N354 P356 R358 E386 K434 A435 F438 H557 D558
BS03	dna	A	R781 N832 G833	R457 N508 G509

Gene Ontology

Molecular Function

• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity
• GO:0008408 3'-5' exonuclease activity

Biological Process

• GO:0006139 nucleobase-containing compound metabolic process
• GO:0006260 DNA replication
• GO:0006261 DNA-templated DNA replication

External links

• PDB: RCSB:8oo6, PDBe:8oo6, PDBj:8oo6
• PDBsum: 8oo6
• PubMed: 37620586
• UniProt: P00582|DPO1_ECOLI DNA polymerase I (Gene Name=polA)