Structure of PDB 8ucu Chain A

Receptor sequence

>8ucuA (length=868) Species: 8355 (Xenopus laevis)

QVFRFYWLDAYEDQYSQPGVVYLFGKVWIESADAYVSCCVSVKNIERTVY
LLPRENRVQLSTGKDTGAPVSMMHVYQEFNEAVAEKYKIMKFKSKKVDKD
YAFEIPDVPASSEYLEVRYSADSPQLPQDLKGETFSHVFGTNTSSLELFL
LSRKIKGPSWLEIKSPQLSSQPMSWCKVEAVVTRPDQVSVVKDLAPPPVV
VLSLSMKTVQNAKTHQNEIVAIAALVHHTFPLDKAPPQPPFQTHFCVLSK
LNDCIFPYDYNEAVKQKNANIEIALTERTLLGFFLAKIHKIDPDVIVGHD
IYGFDLEVLLQRINSCKVPFWSKIGRLRRSVMPKLGGRSGFAERNAACGR
IICDIEISAKELIRCKSYHLSELVHQILKAERVVIPPENIRNAYNDSVHL
LYMLENTWIDAKFILQIMCELNVLPLALQITNIAGNVMSRTLMGGRSERN
EYLLLHAFTENNFIVPDKPVAAYAGGLVLEPKVGFYDKFILLLDFNSLYP
SIIQEYNICFTTVHREADEIPELPHSDLEMGILPREIRKLVERRRHVKQL
MKQPDLNPDLYLQYDIRQKALKLTANSMYGCLGFSYSRFYAKPLAALVTH
QGREILLHTKEMVQKMNLEVIYGDTDSIMINTNCNNLEEVFKLGNRVKSE
INKSYKLLEIDIDGIFKSLLLLKKKKYAALTVEPTGDGKYVTKQELKGLD
IVRRDWCELAKQAGNYVISQILSDQPRDSIVENIQKKLTEIGENVTNGTV
PITQYEINKALTKDPQDYPDKKSLPHVHVALWINSQGGRKVKAGDTISYV
ICQDGSNLSASQRAYAQEQLQKQENLSIDTQYYLSQQVHPVVARICEPID
GIDSALIAMWLGLDPSQF

3D structure

• PDB: 8ucu A mechanistic model of primer synthesis from catalytic structures of DNA polymerase alpha-primase.
• Chain: A
• Resolution: 2.85 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	F679 R778 R784 S785 A836 Y838 G840 G841 G954 G957 F958 Y960 K1047 K1050 K1146 R1218	F341 R440 R446 S447 A471 Y473 G475 G476 G580 G583 F584 Y586 K673 K676 K772 R844
BS02	dna	A	D998 K1071 G1072 R1077 R1078 A1134 T1136 Y1142 K1145	D624 K697 G698 R703 R704 A760 T762 Y768 K771
BS03	DGT	A	D859 F860 N861 S862 L863 Y864 R918 K946 N950 Y953 D1000	D494 F495 N496 S497 L498 Y499 R544 K572 N576 Y579 D626
BS04	MG	A	D859 F860 D1000	D494 F495 D626

Gene Ontology

Molecular Function

• GO:0000166 nucleotide binding
• GO:0003676 nucleic acid binding
• GO:0003677 DNA binding
• GO:0003887 DNA-directed DNA polymerase activity

Biological Process

• GO:0006260 DNA replication
• GO:1902975 mitotic DNA replication initiation

External links

• PDB: RCSB:8ucu, PDBe:8ucu, PDBj:8ucu
• PDBsum: 8ucu
• PubMed: 38491139
• UniProt: Q9DE46|DPOLA_XENLA DNA polymerase alpha catalytic subunit (Gene Name=pola1)