Structure of PDB 5iud Chain D

Receptor sequence

>5iudD (length=871) Species: 9606 (Homo sapiens)

EQVFHFYWLDAYEDQYNQPGVVFLFGKVWIESAETHVSCCVMVKNIERTL
YFLPREMKIDLNTGKETGTPISMKDVYEEFDEKIATKYKIMKFKSKPVEK
NYAFEIPDVPEKSEYLEVKYSAEMPQLPQDLKGETFSHVFGTNTSSLELF
LMNRKIKGPCWLEVKSPQLLNQPVSWCKVEAMALKPDLVNVIKDVSPPPL
VVMAFSMKTMQNAKNHQNEIIAMAALVHHSFALDKAAPKPPFQSHFCVVS
KPKDCIFPYAFKEVIEKKNVKVEVAATERTLLGFFLAKVHKIDPDIIVGH
NIYGFELEVLLQRINVCKAPHWSKIGRLKRSNMPKLGFGERNATCGRMIC
DVEISAKELIRCKSYHLSELVQQILKTERVVIPMENIQNMYSESSQLLYL
LEHTWKDAKFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFL
LLHAFYENNYIVPDKQAAYAGGLVLDPKVGFYDKFILLLDFNSLYPSIIQ
EFNICFTTVQREQIPELPDPSLEMGILPREIRKLVERRKQVKQLMKQQDL
NPDLILQYDIRQKALKLTANSMYGCLGFSYSRFYAKPLAALVTYKGREIL
MHTKEMVQKMNLEVIYGDTDSIMINTNSTNLEEVFKLGNKVKSEVNKLYK
LLEIDIDGVFKSLLLLKKKKYAALVVEPTSDGNYVTKQELKGLDIVRRDW
CDLAKDTGNFVIGQILSDQSRDTIVENIQKRLIEIGENVLNGSVPVSQFE
INKALTKDPQDYPDKKSLPHVHVALWINSQGGRKVKAGDTVSYVICQDGS
NLTASQRAYAPEQLQKQDNLTIDTQYYLAQQIHPVVARICEPIDGIDAVL
IATWLGLDPTQFRVHHYHKDE

3D structure

• PDB: 5iud Human DNA polymerase alpha in binary complex with a DNA:DNA template-primer.
• Chain: D
• Resolution: 3.3 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	D	F679 R784 S785 Y839 G841 G842 V844 S955 G961 F962 K1052 K1054 T1187 S1189 R1222	F338 R443 S444 Y469 G471 G472 V474 S571 G577 F578 K668 K670 T803 S805 R838
BS02	dna	D	R702 D1002 K1053 K1075 G1076 R1081 R1082 D1083 K1137 A1138 T1140 H1154	R361 D618 K669 K691 G692 R697 R698 D699 K753 A754 T756 H770

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:5iud, PDBe:5iud, PDBj:5iud
• PDBsum: 5iud
• PubMed: 27032819
• UniProt: P09884|DPOLA_HUMAN DNA polymerase alpha catalytic subunit (Gene Name=POLA1)