Summary Structural details Experimental details Functional details Sequence Neighbor History Downloads

2BPG

STRUCTURES OF TERNARY COMPLEXES OF RAT DNA POLYMERASE BETA, A DNA TEMPLATE-PRIMER, AND DDCTP

Functional Information from GO Data

Chain	GOid	namespace	contents
A	0001701	biological_process	in utero embryonic development
A	0003677	molecular_function	DNA binding
A	0003684	molecular_function	damaged DNA binding
A	0003887	molecular_function	DNA-directed DNA polymerase activity
A	0005515	molecular_function	protein binding
A	0005634	cellular_component	nucleus
A	0005737	cellular_component	cytoplasm
A	0005829	cellular_component	cytosol
A	0005874	cellular_component	microtubule
A	0005876	cellular_component	spindle microtubule
A	0006260	biological_process	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	0006290	biological_process	pyrimidine dimer repair
A	0006297	biological_process	nucleotide-excision repair, DNA gap filling
A	0006303	biological_process	double-strand break repair via nonhomologous end joining
A	0006915	biological_process	apoptotic process
A	0006954	biological_process	inflammatory response
A	0006974	biological_process	DNA damage response
A	0007435	biological_process	salivary gland morphogenesis
A	0008017	molecular_function	microtubule binding
A	0008630	biological_process	intrinsic apoptotic signaling pathway in response to DNA damage
A	0010332	biological_process	response to gamma radiation
A	0016445	biological_process	somatic diversification of immunoglobulins
A	0016446	biological_process	somatic hypermutation of immunoglobulin genes
A	0016740	molecular_function	transferase activity
A	0016779	molecular_function	nucleotidyltransferase activity
A	0016829	molecular_function	lyase activity
A	0019899	molecular_function	enzyme binding
A	0032991	cellular_component	protein-containing complex
A	0034061	molecular_function	DNA polymerase activity
A	0045471	biological_process	response to ethanol
A	0046872	molecular_function	metal ion binding
A	0048535	biological_process	lymph node development
A	0048536	biological_process	spleen development
A	0048872	biological_process	homeostasis of number of cells
A	0051402	biological_process	neuron apoptotic process
A	0051575	molecular_function	5'-deoxyribose-5-phosphate lyase activity
A	0055093	biological_process	response to hyperoxia
A	0071707	biological_process	immunoglobulin heavy chain V-D-J recombination
A	0071897	biological_process	DNA biosynthetic process
A	0140078	molecular_function	class I DNA-(apurinic or apyrimidinic site) endonuclease activity
B	0001701	biological_process	in utero embryonic development
B	0003677	molecular_function	DNA binding
B	0003684	molecular_function	damaged DNA binding
B	0003887	molecular_function	DNA-directed DNA polymerase activity
B	0005515	molecular_function	protein binding
B	0005634	cellular_component	nucleus
B	0005737	cellular_component	cytoplasm
B	0005829	cellular_component	cytosol
B	0005874	cellular_component	microtubule
B	0005876	cellular_component	spindle microtubule
B	0006260	biological_process	DNA replication
B	0006281	biological_process	DNA repair
B	0006284	biological_process	base-excision repair
B	0006287	biological_process	base-excision repair, gap-filling
B	0006290	biological_process	pyrimidine dimer repair
B	0006297	biological_process	nucleotide-excision repair, DNA gap filling
B	0006303	biological_process	double-strand break repair via nonhomologous end joining
B	0006915	biological_process	apoptotic process
B	0006954	biological_process	inflammatory response
B	0006974	biological_process	DNA damage response
B	0007435	biological_process	salivary gland morphogenesis
B	0008017	molecular_function	microtubule binding
B	0008630	biological_process	intrinsic apoptotic signaling pathway in response to DNA damage
B	0010332	biological_process	response to gamma radiation
B	0016445	biological_process	somatic diversification of immunoglobulins
B	0016446	biological_process	somatic hypermutation of immunoglobulin genes
B	0016740	molecular_function	transferase activity
B	0016779	molecular_function	nucleotidyltransferase activity
B	0016829	molecular_function	lyase activity
B	0019899	molecular_function	enzyme binding
B	0032991	cellular_component	protein-containing complex
B	0034061	molecular_function	DNA polymerase activity
B	0045471	biological_process	response to ethanol
B	0046872	molecular_function	metal ion binding
B	0048535	biological_process	lymph node development
B	0048536	biological_process	spleen development
B	0048872	biological_process	homeostasis of number of cells
B	0051402	biological_process	neuron apoptotic process
B	0051575	molecular_function	5'-deoxyribose-5-phosphate lyase activity
B	0055093	biological_process	response to hyperoxia
B	0071707	biological_process	immunoglobulin heavy chain V-D-J recombination
B	0071897	biological_process	DNA biosynthetic process
B	0140078	molecular_function	class I DNA-(apurinic or apyrimidinic site) endonuclease activity

Functional Information from PDB Data

site_id	AC1
Number of Residues	4
Details	BINDING SITE FOR RESIDUE MG A 500

Chain	Residue
A	THR101
A	VAL103
A	ILE106
P	DC6

site_id	AC2
Number of Residues	15
Details	BINDING SITE FOR RESIDUE DCT A 338

Chain	Residue
A	GLY189
A	ASP190
A	ASP192
A	TYR271
A	PHE272
A	THR273
A	ASN279
P	DC7
T	DG4
T	DG5
A	ARG149
A	GLY179
A	SER180
A	ARG183
A	SER188

site_id	AC3
Number of Residues	13
Details	BINDING SITE FOR RESIDUE DCT B 338

Chain	Residue
B	ARG149
B	SER180
B	ARG183
B	SER188
B	GLY189
B	ASP190
B	ASP192
B	ARG254
B	TYR271
B	ASP276
C	DG4
C	DG5
D	DC7

Functional Information from PROSITE/UniProt

site_id	PS00522
Number of Residues	20
Details	DNA_POLYMERASE_X DNA polymerase family X signature. GSFrRGaesSgDMDVLLthP

Chain	Residue	Details
A	GLY179-PRO198

Functional Information from SwissProt/UniProt

site_id	SWS_FT_FI1
Number of Residues	18
Details	Region: {"description":"DNA-binding","evidences":[{"source":"UniProtKB","id":"P06746","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI2
Number of Residues	2
Details	Active site: {"description":"Nucleophile; Schiff-base intermediate with DNA; for 5'-dRP lyase activity","evidences":[{"source":"UniProtKB","id":"P06746","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI3
Number of Residues	26
Details	Binding site: {"evidences":[{"source":"UniProtKB","id":"P06746","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI4
Number of Residues	2
Details	Modified residue: {"description":"N6-acetyllysine","evidences":[{"source":"UniProtKB","id":"Q8K409","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI5
Number of Residues	4
Details	Modified residue: {"description":"Omega-N-methylarginine; by PRMT6","evidences":[{"source":"UniProtKB","id":"P06746","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

site_id	SWS_FT_FI6
Number of Residues	8
Details	Cross-link: {"description":"Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)","evidences":[{"source":"UniProtKB","id":"P06746","evidenceCode":"ECO:0000250"}]}

Chain

Residue

Details

Catalytic Information from CSA

site_id	CSA1
Number of Residues	1
Details	Annotated By Reference To The Literature 1jms

Chain	Residue	Details
A	ASP256

site_id	CSA2
Number of Residues	1
Details	Annotated By Reference To The Literature 1jms

Chain	Residue	Details
B	ASP256

		Sequence (fasta)
		PDBx/mmCIF
		PDBML format (no-atom)
		PDB format (full)
		Validation report (PDF)