Target Pathogen

Overview

Basic information about this protein and its source genome.

Accession: PA3989
Assembly: Pseudomonas aeruginosa PAO1, complete genome
Gene: PA3989 holA
Status: annotated
Amino acids: 345
Structure source: AlphaFold

EC

2.7.7.7

GO

GO:0009360 The DNA polymerase III holoenzyme is a complex that contains 10 different types of subunits. These subunits are organized into 3 functionally essential sub-assemblies: the pol III core, the beta sliding clamp processivity factor and the clamp-loading complex. The pol III core carries out the polymerase and the 3'-5' exonuclease proofreading activities. The polymerase is tethered to the template via the sliding clamp processivity factor. The clamp-loading complex assembles the beta processivity factor onto the primer template and plays a central role in the organization and communication at the replication fork. GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). GO:0003887 Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time. GO:0006261 A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands. GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.

Target profile

Computed evidence for target prioritization.

Human off-target: No hit
Gut microbiome off-target: hit
Essential (DEG): Y
Localization: Unknown

Selected Druggability evidence

Selected Druggability is the FPocket score chosen for ranking using the curated structure priority. The 3D viewer may show a different loaded structure, so its visible pockets can differ.

FPocket 0.546

Structure –

Pocket –

Sequence

Primary amino-acid sequence viewer.

Functional Annotations

Enzyme classification and Gene Ontology terms linked to this protein.

1 EC 5 GO

Enzyme Commission (EC)

1

2.7.7.7

Gene Ontology (GO)

5

GO:0009360 The DNA polymerase III holoenzyme is a complex that contains 10 different types of subunits. These subunits are organized into 3 functionally essential sub-assemblies: the pol III core, the beta sliding clamp processivity factor and the clamp-loading complex. The pol III core carries out the polymerase and the 3'-5' exonuclease proofreading activities. The polymerase is tethered to the template via the sliding clamp processivity factor. The clamp-loading complex assembles the beta processivity factor onto the primer template and plays a central role in the organization and communication at the replication fork.
GO:0003677 Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid).
GO:0003887 Catalysis of the reaction: deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1); DNA-template-directed extension of the 3'-end of a DNA strand by one nucleotide at a time.
GO:0006261 A DNA replication process that uses parental DNA as a template for the DNA-dependent DNA polymerases that synthesize the new strands.
GO:0006260 The cellular metabolic process in which a cell duplicates one or more molecules of DNA. DNA replication begins when specific sequences, known as origins of replication, are recognized and bound by the origin recognition complex, and ends when the original DNA molecule has been completely duplicated and the copies topologically separated. The unit of replication usually corresponds to the genome of the cell, an organelle, or a virus. The template for replication can either be an existing DNA molecule or RNA.

Sequence Features

Domain/signature hits from InterPro and related databases.

18 records

Show feature table

Start	End	DB	Term	Name
145	213	FunFam	G3DSA:1.10.8.60:FF:000085	DNA polymerase III subunit delta
16	336	NCBIfam	TIGR01128	DNA polymerase III subunit delta
16	336	InterPro	IPR005790	DNA polymerase III, delta subunit
20	191	Pfam	PF06144	DNA polymerase III, delta subunit
20	191	InterPro	IPR010372	DNA polymerase III delta, N-terminal
216	339	Pfam	PF14840	Processivity clamp loader gamma complex DNA pol III C-term
216	339	InterPro	IPR032780	DNA polymerase III subunit delta, C-terminal
213	337	SUPERFAMILY	SSF48019	post-AAA+ oligomerization domain-like
213	337	InterPro	IPR008921	DNA polymerase III, clamp loader complex, gamma/delta/delta subunit, C-terminal
143	207	CDD	cd18138	HLD_clamp_pol_III_delta
145	213	Gene3D	G3DSA:1.10.8.60	-
1	211	SUPERFAMILY	SSF52540	P-loop containing nucleoside triphosphate hydrolases
1	211	InterPro	IPR027417	P-loop containing nucleoside triphosphate hydrolase
1	136	FunFam	G3DSA:3.40.50.300:FF:001131	DNA polymerase III subunit delta
1	138	Gene3D	G3DSA:3.40.50.300	-
1	138	InterPro	IPR027417	P-loop containing nucleoside triphosphate hydrolase
1	338	PANTHER	PTHR34388	DNA POLYMERASE III SUBUNIT DELTA
216	341	Gene3D	G3DSA:1.20.272.10	-

3D Structure

Selected loaded structure. Experimental PDB entries may cover only a portion of the sequence; predicted models typically cover the full protein.

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Structural evidence

0 + 1

Experimental PDB entries and predicted models. Click Switch to display a different structure in the viewer.

Entry	Method	Resolution	Chain	Coverage	Links	Status
AlphaFold PA3989	AlphaFold	—	—	full sequence	—	Viewing

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Pockets (FPOCKET)

Showing top-ranked FPocket candidates by druggability. Druggability is color-coded: high (0.7 or higher), medium (0.4 to 0.69), low (below 0.4).

FPOCKET	Sticks	Spheres	Surfaces	Druggability	Labels	Zoom	Positions
2				0.546
5				0.435

PA3989