6N9U
Structure of bacteriophage T7 lagging-strand DNA polymerase (D5A/E7A) interacting with primase domains of two gp4 subunits bound to an RNA/DNA hybrid and dTTP (from LagS1)
Functional Information from GO Data
Chain | GOid | namespace | contents |
E | 0003677 | molecular_function | DNA binding |
E | 0003678 | molecular_function | DNA helicase activity |
E | 0003697 | molecular_function | single-stranded DNA binding |
E | 0003896 | molecular_function | DNA primase activity |
E | 0004386 | molecular_function | helicase activity |
E | 0005515 | molecular_function | protein binding |
E | 0005524 | molecular_function | ATP binding |
E | 0006260 | biological_process | DNA replication |
E | 0006269 | biological_process | DNA replication, synthesis of primer |
E | 0008270 | molecular_function | zinc ion binding |
E | 0016779 | molecular_function | nucleotidyltransferase activity |
E | 0016787 | molecular_function | hydrolase activity |
E | 0016887 | molecular_function | ATP hydrolysis activity |
E | 0032508 | biological_process | DNA duplex unwinding |
E | 0039693 | biological_process | viral DNA genome replication |
E | 0042802 | molecular_function | identical protein binding |
E | 0043139 | molecular_function | 5'-3' DNA helicase activity |
E | 0046872 | molecular_function | metal ion binding |
E | 1990077 | cellular_component | primosome complex |
F | 0003677 | molecular_function | DNA binding |
F | 0003678 | molecular_function | DNA helicase activity |
F | 0003697 | molecular_function | single-stranded DNA binding |
F | 0003896 | molecular_function | DNA primase activity |
F | 0004386 | molecular_function | helicase activity |
F | 0005515 | molecular_function | protein binding |
F | 0005524 | molecular_function | ATP binding |
F | 0006260 | biological_process | DNA replication |
F | 0006269 | biological_process | DNA replication, synthesis of primer |
F | 0008270 | molecular_function | zinc ion binding |
F | 0016779 | molecular_function | nucleotidyltransferase activity |
F | 0016787 | molecular_function | hydrolase activity |
F | 0016887 | molecular_function | ATP hydrolysis activity |
F | 0032508 | biological_process | DNA duplex unwinding |
F | 0039693 | biological_process | viral DNA genome replication |
F | 0042802 | molecular_function | identical protein binding |
F | 0043139 | molecular_function | 5'-3' DNA helicase activity |
F | 0046872 | molecular_function | metal ion binding |
F | 1990077 | cellular_component | primosome complex |
H | 0000166 | molecular_function | nucleotide binding |
H | 0003676 | molecular_function | nucleic acid binding |
H | 0003677 | molecular_function | DNA binding |
H | 0003887 | molecular_function | DNA-directed DNA polymerase activity |
H | 0004527 | molecular_function | exonuclease activity |
H | 0004529 | molecular_function | DNA exonuclease activity |
H | 0005515 | molecular_function | protein binding |
H | 0006260 | biological_process | DNA replication |
H | 0006261 | biological_process | DNA-templated DNA replication |
H | 0006302 | biological_process | double-strand break repair |
H | 0008408 | molecular_function | 3'-5' exonuclease activity |
H | 0039693 | biological_process | viral DNA genome replication |
H | 0046872 | molecular_function | metal ion binding |
H | 0090592 | biological_process | DNA synthesis involved in DNA replication |
Functional Information from PDB Data
site_id | AC1 |
Number of Residues | 4 |
Details | binding site for residue ZN E 601 |
Chain | Residue |
E | CYS17 |
E | CYS20 |
E | CYS36 |
E | CYS39 |
site_id | AC2 |
Number of Residues | 14 |
Details | binding site for residue TTP H 801 |
Chain | Residue |
H | HIS506 |
H | ARG518 |
H | LYS522 |
H | TYR526 |
H | ASP654 |
H | MG802 |
P | DOC6 |
T | DA2004 |
T | DG2005 |
H | ASP475 |
H | ALA476 |
H | GLY478 |
H | LEU479 |
H | GLU480 |
site_id | AC3 |
Number of Residues | 4 |
Details | binding site for residue MG H 802 |
Chain | Residue |
H | ASP475 |
H | ALA476 |
H | ASP654 |
H | TTP801 |
site_id | AC4 |
Number of Residues | 1 |
Details | binding site for residue MG H 803 |
Chain | Residue |
H | HIS59 |
Functional Information from PROSITE/UniProt
site_id | PS00447 |
Number of Residues | 20 |
Details | DNA_POLYMERASE_A DNA polymerase family A signature. RdnAKtfiYGflYgaGdekI |
Chain | Residue | Details |
H | ARG518-ILE537 |
Functional Information from SwissProt/UniProt
site_id | SWS_FT_FI1 |
Number of Residues | 3 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04101, ECO:0000305|PubMed:9440688 |
Chain | Residue | Details |
H | ASP5 | |
H | GLU7 | |
H | ASP174 |
site_id | SWS_FT_FI2 |
Number of Residues | 3 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04101, ECO:0000269|PubMed:9440688, ECO:0000305|PubMed:9914251 |
Chain | Residue | Details |
H | ASP475 | |
F | ASP237 | |
H | ALA476 | |
H | ASP654 | |
E | CYS39 | |
E | ASP237 | |
F | CYS17 | |
F | CYS20 | |
F | CYS36 | |
F | CYS39 |
site_id | SWS_FT_FI3 |
Number of Residues | 4 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04101, ECO:0000305|PubMed:9914251 |
Chain | Residue | Details |
H | HIS506 | |
H | ARG518 | |
H | LYS522 | |
H | TYR526 |
site_id | SWS_FT_FI4 |
Number of Residues | 2 |
Details | BINDING: BINDING => ECO:0000255|HAMAP-Rule:MF_04154 |
Chain | Residue | Details |
E | SER312 | |
F | SER312 |
site_id | SWS_FT_FI5 |
Number of Residues | 2 |
Details | SITE: dTTP/dATP binding => ECO:0000255|HAMAP-Rule:MF_04154, ECO:0000305|PubMed:10892646 |
Chain | Residue | Details |
E | ARG361 | |
F | ARG361 |
site_id | SWS_FT_FI6 |
Number of Residues | 2 |
Details | SITE: dTTP/dATP binding => ECO:0000255|HAMAP-Rule:MF_04154, ECO:0000305|PubMed:10535735 |
Chain | Residue | Details |
E | HIS465 | |
F | HIS465 |
site_id | SWS_FT_FI7 |
Number of Residues | 6 |
Details | SITE: dTTP/dATP binding => ECO:0000255|HAMAP-Rule:MF_04154, ECO:0000305|PubMed:10535735, ECO:0000305|PubMed:10892646 |
Chain | Residue | Details |
E | ARG504 | |
E | ARG522 | |
E | TYR535 | |
F | ARG504 | |
F | ARG522 | |
F | TYR535 |