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DNA_polymerase_catalytic_subunit

Euk-Vir

Meleagrid_alphaherpesvirus_1

DNA_polymerase_catalytic_subunit__NP_073324__Meleagrid_alphaherpesvirus_1__37108

Identity

Accession:: NP_073324 ↗
Protein ID:: DNA_polymerase_catalytic_subunit
Kingdom:: euk

Quality

75.8 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Mardivirus› Meleagrid_alphaherpesvirus_1

TaxID: 37108

Cluster

View cluster (158 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 178-286

PDB

Domain cluster: rep: DNA_polymerase_catalytic_subunit__NP_066862__Gallid_alphaherpesvirus_3__35250__D182-283

D2 high residues 926-999_1042-1063_1105-1149

PDB

Domain cluster: representative

CATH (21)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gv9B06	1.10.132.60	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain	0.85	80.0	6.98e-01	100.0%	95.1%
1txuA01	1.10.246.120	Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 ›	0.67	40.0	4.79e-01	92.2%	88.3%
4fxdA06	1.10.132.60	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain	0.64	61.0	5.79e-01	100.0%	95.6%
2cdqA02	1.20.120.1320	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartokinase, catalytic domain	0.63	32.0	3.73e-01	86.5%	67.0%
2odmA00	1.10.287.750	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like	0.63	33.0	4.20e-01	95.7%	88.6%
3iayA07	1.10.132.60	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain	0.60	57.0	5.58e-01	100.0%	95.4%
5wp3B00	1.10.132.20	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor	0.58	37.0	4.31e-01	90.1%	88.2%
3nbxX03	1.20.58.1510	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.58	37.0	4.24e-01	100.0%	89.1%
4wzxA01	1.20.58.80	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit	0.57	28.0	3.68e-01	97.2%	85.3%
1tgoA05	1.10.132.60	Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › B family DNA polymerase, thumb domain	0.57	53.0	5.03e-01	100.0%	86.8%
1zu2A00	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.55	31.0	3.06e-01	96.5%	46.8%
7nc3F01	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.53	34.0	3.70e-01	97.9%	77.2%
1dk8A02	1.10.167.10	Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2	0.53	28.0	3.43e-01	85.1%	82.4%
2juaA00	1.20.1480.30	Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › Designed four-helix bundle protein	0.52	31.0	3.47e-01	100.0%	76.5%
4dmvA01	1.20.58.1190	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.52	30.0	3.74e-01	100.0%	94.1%
3rbtA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.52	34.0	3.71e-01	99.3%	79.5%
2np5D00	1.10.357.10	Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2	0.52	37.0	3.61e-01	97.9%	65.2%
4xaxB02	1.20.58.1290	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › CarD-like, C-terminal domain	0.51	35.0	4.06e-01	90.1%	98.0%
3pwxA01	1.20.1330.10	Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain	0.50	31.0	2.84e-01	97.9%	45.1%
4ivfA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.50	35.0	3.84e-01	100.0%	87.9%
5cwhA01	1.25.10.10	Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant	0.50	28.0	2.80e-01	98.6%	46.8%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1821876	4969.1.1.1 ↗	alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B	0.85	80.0	6.98e-01	100.0%	95.1%
4844122	4969.1.1.1 ↗	alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B	0.69	52.0	5.64e-01	76.6%	99.2%
4247950	4994.1.1.1 ↗	alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like › DUF1507	0.62	35.0	4.09e-01	90.1%	80.0%
3255855	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.59	34.0	3.57e-01	97.2%	61.6%
1548122	601.43.1.1 ↗	alpha bundles › Four-helical up-and-down bundle › Biofilm formation modulator YmoB › Biofilm formation modulator YmoB › YbaJ	0.55	35.0	3.78e-01	94.3%	73.8%
3594203	310.2.1.0 ↗	a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF	0.55	37.0	4.16e-01	96.5%	92.4%
4283760	1203.1.2.7 ↗	alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 › GNVR	0.54	35.0	3.53e-01	91.5%	64.3%
3926043	5057.1.1.1 ↗	alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb	0.53	37.0	3.16e-01	71.6%	86.9%
3236897	5057.1.1.1 ↗	alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb	0.51	35.0	3.15e-01	70.9%	91.2%

D3 medium residues 120-175_290-337

PDB

Domain cluster: rep: DNA_polymerase_catalytic_subunit__NP_944403__Psittacid_alphaherpesvirus_1__50294__D105-157_257-307

D4 medium residues 444-537

PDB

Domain cluster: rep: UL30__YP_003084391__Anatid_alphaherpesvirus_1__104388__D444-522

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03104.26 best	DNA_pol_B_exo1	77.3	1.70e-21	89.4%	34.3%

D5 medium residues 666-692_789-925

PDB

Domain cluster: rep: NC_042352.1__YP_009639584.1__FGG68_gp42__00043__D422-604

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00136.27 best	DNA_pol_B	156.4	1.50e-45	83.5%	30.2%
PF00136.27	DNA_pol_B	38.1	1.20e-09	18.3%	6.4%

D6 medium residues 1154-1205

PDB