4ZTU

Structural basis for processivity and antiviral drug toxicity in human mitochondrial DNA replicase

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0002020	molecular_function	protease binding
A	0003677	molecular_function	DNA binding
A	0003682	molecular_function	chromatin binding
A	0003887	molecular_function	DNA-directed DNA polymerase activity
A	0005515	molecular_function	protein binding
A	0005739	cellular_component	mitochondrion
A	0005759	cellular_component	mitochondrial matrix
A	0005760	cellular_component	gamma DNA polymerase complex
A	0006259	biological_process	DNA metabolic process
A	0006260	biological_process	DNA replication
A	0006261	biological_process	DNA-templated DNA replication
A	0006264	biological_process	mitochondrial DNA replication
A	0006281	biological_process	DNA repair
A	0006284	biological_process	base-excision repair
A	0006287	biological_process	base-excision repair, gap-filling
A	0008310	molecular_function	single-stranded DNA 3'-5' DNA exonuclease activity
A	0008408	molecular_function	3'-5' exonuclease activity
A	0016787	molecular_function	hydrolase activity
A	0016829	molecular_function	lyase activity
A	0032991	cellular_component	protein-containing complex
A	0042645	cellular_component	mitochondrial nucleoid
A	0043231	cellular_component	intracellular membrane-bounded organelle
A	0045004	biological_process	DNA replication proofreading
A	0051575	molecular_function	5'-deoxyribose-5-phosphate lyase activity
A	0071897	biological_process	DNA biosynthetic process
B	0001701	biological_process	in utero embryonic development
B	0003677	molecular_function	DNA binding
B	0003690	molecular_function	double-stranded DNA binding
B	0003887	molecular_function	DNA-directed DNA polymerase activity
B	0005515	molecular_function	protein binding
B	0005737	cellular_component	cytoplasm
B	0005739	cellular_component	mitochondrion
B	0005759	cellular_component	mitochondrial matrix
B	0005760	cellular_component	gamma DNA polymerase complex
B	0006260	biological_process	DNA replication
B	0006261	biological_process	DNA-templated DNA replication
B	0006264	biological_process	mitochondrial DNA replication
B	0007005	biological_process	mitochondrion organization
B	0030337	molecular_function	DNA polymerase processivity factor activity
B	0032042	biological_process	mitochondrial DNA metabolic process
B	0042645	cellular_component	mitochondrial nucleoid
B	0042802	molecular_function	identical protein binding
B	0070182	molecular_function	DNA polymerase binding
B	0071897	biological_process	DNA biosynthetic process
B	1900264	biological_process	positive regulation of DNA-directed DNA polymerase activity
C	0001701	biological_process	in utero embryonic development
C	0003677	molecular_function	DNA binding
C	0003690	molecular_function	double-stranded DNA binding
C	0003887	molecular_function	DNA-directed DNA polymerase activity
C	0005515	molecular_function	protein binding
C	0005737	cellular_component	cytoplasm
C	0005739	cellular_component	mitochondrion
C	0005759	cellular_component	mitochondrial matrix
C	0005760	cellular_component	gamma DNA polymerase complex
C	0006260	biological_process	DNA replication
C	0006261	biological_process	DNA-templated DNA replication
C	0006264	biological_process	mitochondrial DNA replication
C	0007005	biological_process	mitochondrion organization
C	0030337	molecular_function	DNA polymerase processivity factor activity
C	0032042	biological_process	mitochondrial DNA metabolic process
C	0042645	cellular_component	mitochondrial nucleoid
C	0042802	molecular_function	identical protein binding
C	0070182	molecular_function	DNA polymerase binding
C	0071897	biological_process	DNA biosynthetic process
C	1900264	biological_process	positive regulation of DNA-directed DNA polymerase activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	binding site for residue MG A 4001

Chain	Residue
A	ASP1135
A	MG4002
A	DCT4003
P	DOC24

---

site_id	AC2
Number of Residues	5
Details	binding site for residue MG A 4002

Chain	Residue
A	ASP890
A	VAL891
A	ASP1135
A	MG4001
A	DCT4003

---

site_id	AC3
Number of Residues	16
Details	binding site for residue DCT A 4003

Chain	Residue
A	ARG853
A	ASP890
A	VAL891
A	ASP892
A	SER893
A	GLN894
A	GLU895
A	HIS932
A	LYS947
A	TYR951
A	ASP1135
A	MG4001
A	MG4002
P	DOC24
T	DG4
T	DA5

---

site_id	AC4
Number of Residues	12
Details	binding site for Di-nucleotide DA P 23 and DOC P 24

Chain	Residue
A	ARG853
A	LEU860
A	ALA862
A	ASN864
A	ARG866
A	HIS1134
A	MG4001
A	DCT4003
P	DT22
T	DA5
T	DT6
T	DA7

---

Functional Information from PROSITE/UniProt

site_id	PS00447
Number of Residues	20
Details	DNA_POLYMERASE_A DNA polymerase family A signature. RehAKifnYGriYgaGqpfA

Chain	Residue	Details
A	ARG943-ALA962

---

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	2
Details	MOD_RES: Phosphoserine => ECO:0007744|PubMed:23186163

Chain	Residue	Details
B	SER38
C	SER38

---

site_id	SWS_FT_FI2
Number of Residues	5
Details	BINDING: BINDING => ECO:0000269|PubMed:37202477, ECO:0007744|PDB:8D37

Chain	Residue	Details
A	SER306
A	LYS806
A	SER893
A	ARG943
A	SER1095

---

site_id	SWS_FT_FI3
Number of Residues	2
Details	BINDING: BINDING => ECO:0000305|PubMed:26056153, ECO:0007744|PDB:4ZTZ

Chain	Residue	Details
A	ARG579
A	ARG869

---

site_id	SWS_FT_FI4
Number of Residues	3
Details	BINDING: BINDING => ECO:0000269|PubMed:26056153, ECO:0000269|PubMed:37202477, ECO:0007744|PDB:4ZTZ, ECO:0007744|PDB:8D37

Chain	Residue	Details
A	SER593
A	LYS947
A	TYR951

---

site_id	SWS_FT_FI5
Number of Residues	4
Details	BINDING: BINDING => ECO:0000305|PubMed:37202477, ECO:0007744|PDB:8D37

Chain	Residue	Details
A	HIS754
A	GLY763
A	LYS768
A	SER863

---

site_id	SWS_FT_FI6
Number of Residues	6
Details	BINDING: BINDING => ECO:0000269|PubMed:26056153, ECO:0007744|PDB:4ZTZ

Chain	Residue	Details
A	THR849
A	ASP890
A	VAL891
A	GLU895
A	THR1094
A	ASP1135

---

site_id	SWS_FT_FI7
Number of Residues	2
Details	SITE: Critical for replication fidelity and mismatch recognition => ECO:0000269|PubMed:37202477

Chain	Residue	Details
A	ARG853
A	GLN1102

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