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139717
Biological Macromolecular Structures Enabling Breakthroughs in Research and Education
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Structure Summary
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Sequence
Sequence Similarity
Structure Similarity
Experiment
1BPD
CRYSTAL STRUCTURE OF RAT DNA POLYMERASE BETA: EVIDENCE FOR A COMMON POLYMERASE MECHANISM
Display Files
FASTA Sequence
PDB File
PDB File (Header)
mmCIF File
mmCIF File (Header)
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PDBML/XML File (Header)
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FASTA Sequence
PDB File (Text)
PDB File (gz)
PDBx/mmCIF File
PDBx/mmCIF File (gz)
PDBML/XML File
PDBML/XML File (gz)
Biological Assembly (gz) (A)
Macromolecule Annotations for the Entities in PDB 1BPD
Domain Annotation: SCOP Classification
SCOP Database (version: 1.75) Homepage
Chains
Domain Info
Class
Fold
Superfamily
Family
Domain
Species
A9-91
d1bpda1
All alpha proteins
SAM domain-like
DNA polymerase beta, N-terminal domain-like
DNA polymerase beta, N-terminal domain-like
DNA polymerase beta, N-terminal (8 kD)-domain
Rat (Rattus norvegicus) [TaxId: 10116]
A92-148
d1bpda2
All alpha proteins
SAM domain-like
PsbU/PolX domain-like
DNA polymerase beta-like, second domain
DNA polymerase beta
Rat (Rattus norvegicus) [TaxId: 10116]
A149-335
d1bpda3
Alpha and beta proteins (a+b)
Nucleotidyltransferase
Nucleotidyltransferase
DNA polymerase beta-like
DNA polymerase beta, catalytic (31 kD) fragment
Rat (Rattus norvegicus) [TaxId: 10116]
Domain Annotation: CATH
CATH Database (version 4.0.0) Homepage
Chains
Domain
Class
Architecture
Topology
Homology
A1
1bpdA01
Mainly Alpha
Orthogonal Bundle
DNA polymerase; domain 1
DNA polymerase beta, N-terminal domain-like
A2
1bpdA02
Mainly Alpha
Orthogonal Bundle
DNA polymerase; domain 1
5' to 3' exonuclease, C-terminal subdomain
A3
1bpdA03
Alpha Beta
2-Layer Sandwich
Beta Polymerase; domain 2
Beta Polymerase, domain 2
A4
1bpdA04
Alpha Beta
2-Layer Sandwich
Beta Polymerase; domain 3
Beta Polymerase, domain 3
Protein Family Annotation
Pfam Database Homepage
Chains
Pfam Accession
Pfam Identifier
Pfam Description
Type
Source
Gene Product Annotation
Gene Ontology Consortium Homepage
Chains
Polymer
Molecular Function
Biological Process
Cellular Component
A
DNA POLYMERASE BETA (1BPD:A)
DNA Binding
Damaged DNA Binding
DNA Directed DNA Polymerase Activity
Protein Binding
Microtubule Binding
Transferase Activity
Nucleotidyltransferase Activity
Lyase Activity
Enzyme Binding
DNA Polymerase Activity
Metal Ion Binding
DNA Replication
DNA Repair
Base Excision Repair
Base Excision Repair Gap Filling
Pyrimidine Dimer Repair
Apoptotic Process
Inflammatory Response
Cellular Response to DNA Damage Stimulus
Salivary Gland Morphogenesis
Aging
Intrinsic Apoptotic Signaling Pathway in Response to DNA Damage
Response to Gamma Radiation
Somatic Diversification of Immunoglobulins
Somatic Hypermutation of Immunoglobulin Genes
Response to Ethanol
Lymph Node Development
Spleen Development
Homeostasis of Number of Cells
Neuron Apoptotic Process
Response to Hyperoxia
Immunoglobulin Heavy Chain V D J Recombination
DNA Biosynthetic Process
Nucleus
Cytoplasm
Microtubule
Spindle Microtubule
Protein Containing Complex
Protein Modification Annotation
Type
PDB Residue Nr.
Description