Structure of PDB 4q5v Chain A

Receptor sequence

>4q5vA (length=865) Species: 9606 (Homo sapiens)

EQVFHFYWLDAYEDQYNQPGVVFLFGKVWIESAETHVSCCVMVKNIERTL
YFLPREMKIDLNTGKETGTPISMKDVYEEFDEKIATKYKIMKFKSKPVEK
NYAFEIPDVPEKSEYLEVKYSAEMPQLPQDLKGETFSHVFGTNTSSLELF
LMNRKIKGPCWLEVKSPQLLNQPVSWCKAEAMALKPDLVNVIKDVSPPPL
VVMAFSMKTMQNAKNHQNEIIAMAALVHHSFALDKAAPKPPFQSHFCVVS
KPKDCIFPYAFKEVIEKKNVKVEVAATERTLLGFFLAKVHKIDPDIIVGH
NIYGFELEVLLQRINVCKAPHWSKIGRLKRSNMPKLGFGERNATCGRMIC
DVEISAKELIRCKSYHLSELVQQILKTERVVIPMENIQNMYSESSQLLYL
LEHTWKDAKFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFL
LLHAFYENNYIVPDKQIRKKAAYAGGLVLDPKVGFYDKFILLLDFNSLYP
SIIQEFNICFTTVQRVEQIPELPDPSLEMGILPREIRKLVERRKQVKQLM
KQQDLNPDLILQYDIRQKALKLTANSMYGCLGFSYSRFYAKPLAALVTYK
GREILMHTKEMVQKMNLEVIYGDTDSIMINTNSTNLEEVFKLGNKVKSEV
NKLYKLLEIDIDGVFKSLLLLKKKKYAALVVEPTSDGNYVTKQELKGLDI
VRRDWCDLAKDTGNFVIGQILSDQSRDTIVENIQKRLIEIGENVLNGSVP
VSQFEINKALTKDPQDYPDKKSLPHVHVALWINSQGGRKVKAGDTVSYVI
CQDGSNLTASQRAYAPEQLQKQDNLTIDTQYYLAQQIHPVVARICEPIDG
IDAVLIATWLGLDPT

3D structure

• PDB: 4q5v Structural basis for inhibition of DNA replication by aphidicolin.
• Chain: A
• Resolution: 2.52 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	rna	A	K1075 G1076 R1081 R1082 D1083 A1138 T1140 K1141 Y1146 L1152 H1154	K696 G697 R702 R703 D704 A759 T761 K762 Y767 L773 H775
BS02	dna	A	G783 R784 S785 R834 A837 A838 Y839 A840 G841 G842 V844 S955 G958 C959 G961 F962 K1051 K1053 K1054 T1187 S1189 R1222	G442 R443 S444 R468 A471 A472 Y473 A474 G475 G476 V478 S576 G579 C580 G582 F583 K672 K674 K675 T808 S810 R843
BS03	2ZE	A	L864 Y865 N954 S955 Y957 G958	L498 Y499 N575 S576 Y578 G579	BindingDB: IC50=4300nM,EC50=2000nM

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:1902975 mitotic DNA replication initiation

External links

• PDB: RCSB:4q5v, PDBe:4q5v, PDBj:4q5v
• PDBsum: 4q5v
• PubMed: 25429975
• UniProt: P09884|DPOLA_HUMAN DNA polymerase alpha catalytic subunit (Gene Name=POLA1)