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DNA_polymerase

Euk-Vir

Choristoneura_rosaceana_nucleopolyhedrovirus

DNA_polymerase__YP_008378438__Choristoneura_rosaceana_nucleopolyhedrovirus__58094

Identity

Accession:: YP_008378438 ↗
Protein ID:: DNA_polymerase
Kingdom:: euk

Quality

82.0 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Baculoviridae› Alphabaculovirus› Choristoneura_rosaceana_nucleopolyhedrovirus

TaxID: 58094

Cluster

View cluster (158 members)

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 190-270_328-414

PDB

Domain cluster: rep: DNA_polymerase__YP_009118564__Condylorrhiza_vestigialis_MNPV__1592576__D196-404

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF13482.13 best	RNase_H_2	26.5	7.70e-06	92.3%	98.8%
PF03104.26	DNA_pol_B_exo1	26.1	7.50e-06	50.6%	39.3%

D2 high residues 616-710

PDB

Domain cluster: rep: DNA_polymerase_catalytic_subunit__YP_009552191__Malacosoma_neustria_nucleopolyhedrovirus__38012__D557-567_668-765

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00136.27 best	DNA_pol_B	29.2	5.90e-07	100.0%	19.4%

D3 medium residues 16-65_127-187

PDB

Domain cluster: rep: DNA_polymerase__YP_009666761__Mythimna_unipuncta_nucleopolyhedrovirus__447897__D1-67_114-188

D4 medium residues 66-126

PDB

Domain cluster: rep: dna-pol__YP_009255332__Catopsilia_pomona_nucleopolyhedrovirus__1850906__D68-127

D5 medium residues 271-327

PDB

Domain cluster: representative

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1vwxg01	6.20.370.70	Special › Other non-globular › Rhinovirus 14, subunit 4 ›	0.60	35.0	3.98e-01	86.0%	86.5%
2v79A00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.59	51.0	4.10e-01	100.0%	74.8%
4gs3A00	2.40.50.140	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins	0.55	41.0	3.53e-01	96.5%	51.1%
4dloB01	4.10.1240.10	Few Secondary Structures › Irregular › Hormone receptor fold › GPCR, family 2, extracellular hormone receptor domain	0.55	39.0	3.81e-01	78.9%	74.2%
3go5A02	2.40.50.140	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins	0.54	36.0	3.28e-01	89.5%	50.6%
2veaA02	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.53	43.0	3.42e-01	94.7%	69.2%
4mn5A00	3.30.450.20	Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain	0.52	43.0	3.68e-01	100.0%	86.4%

ECOD (14)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4449325	387.1.1.24 ↗	few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related › Toxin_35	0.66	45.0	4.96e-01	100.0%	93.3%
4059788	387.1.1.24 ↗	few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related › Toxin_35	0.65	45.0	4.37e-01	100.0%	64.6%
4617044	387.1.1.24 ↗	few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related › Toxin_35	0.65	45.0	4.46e-01	100.0%	70.0%
3648966	11.1.1.47 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CBM_48	0.62	35.0	2.71e-01	100.0%	23.1%
3230428	708.1.1.0 ↗	beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain	0.56	47.0	3.68e-01	96.5%	66.2%
3486348	101.17.1.0 ↗	alpha arrays › HTH › IHF-like DNA-binding proteins › IHF-like DNA-binding proteins	0.55	41.0	3.94e-01	80.7%	69.2%
4015072	4096.1.1.0 ↗	a+b two layers › NAP-like › NAP-like › NAP-like	0.54	41.0	3.24e-01	89.5%	51.7%
3513179	388.1.1.0 ↗	few secondary structure elements › Huristasin-like › Huristasin-like › Huristasin-like	0.53	35.0	3.53e-01	96.5%	66.7%
4958666	211.1.1.0 ↗	a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase	0.53	40.0	3.43e-01	100.0%	47.6%
3282644	2.24.1.2 ↗	beta barrels › OB-fold › probable receptor YhhM › probable receptor YhhM › DUF7489	0.53	39.0	3.72e-01	93.0%	67.7%
3738064	304.112.1.0 ↗	a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain	0.52	37.0	3.12e-01	77.2%	56.0%
3365145	70.3.1.1 ↗	beta barrels › beta-clip › SET domain-like › SET domain-like › SET	0.51	44.0	3.35e-01	98.2%	67.9%
3922917	2004.1.1.54 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Septin	0.51	37.0	2.37e-01	84.2%	63.0%
3497892	206.1.1.1 ↗	a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase	0.50	41.0	2.42e-01	93.0%	10.4%

D6 medium residues 417-476

PDB

Domain cluster: rep: DNA_polymerase__YP_009552625__Operophtera_brumata_nucleopolyhedrovirus__1046267__D407-471

D7 medium residues 477-502_523-614

PDB

Domain cluster: rep: DNA_polymerase__YP_010086932__Cryptophlebia_peltastica_nucleopolyhedrovirus__2304025__D494-537_560-649

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00136.27 best	DNA_pol_B	29.5	4.80e-07	62.7%	12.8%