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DNA_polymerase

Euk-Vir

Trichoplusia_ni_granulovirus_LBIV-12

DNA_polymerase__YP_009506198__Trichoplusia_ni_granulovirus_LBIV-12__1916701

Identity

Accession:: YP_009506198 ↗
Protein ID:: DNA_polymerase
Kingdom:: euk

Quality

81.2 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Baculoviridae› Betabaculovirus› Trichoplusia_ni_granulovirus_LBIV-12

TaxID: 1916701

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 38-204

PDB

Domain cluster: rep: DNA_polymerase__YP_010084862__Shrimp_hemocyte_iridescent_virus__2039780__D2-200

D2 high residues 208-431

PDB

Domain cluster: rep: DNA_polymerase__YP_009118564__Condylorrhiza_vestigialis_MNPV__1592576__D196-404

Pfam (3)

Accession	Name	Score	E-value	Q cov	HMM cov
PF10108.16 best	DNA_pol_B_exo2	43.7	3.80e-11	88.8%	61.3%
PF03104.26	DNA_pol_B_exo1	84.9	8.30e-24	79.0%	73.1%
PF13482.13	RNase_H_2	24.9	2.40e-05	75.0%	71.5%

D3 high residues 783-950

PDB

Domain cluster: rep: hypothetical_protein_MIV120R__YP_654692__Invertebrate_iridescent_virus_3__345201__D821-880_935-1042

D4 medium residues 479-494_513-549_567-672

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	40.5	2.30e-10	69.8%	18.1%

D5 medium residues 550-566_673-706_757-782

PDB

Domain cluster: representative

CATH (3)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2gv9B04	3.90.1600.10	Alpha Beta › Alpha-Beta Complex › Palm domain of DNA polymerase › B family DNA polymerase, palm domain	0.87	80.0	5.73e-01	97.4%	100.0%
3d6wB02	2.20.25.10	Mainly Beta › Single Sheet › N-terminal domain of TfIIb ›	0.58	23.0	3.11e-01	80.5%	66.7%
2lojA01	2.10.70.10	Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1	0.54	28.0	3.68e-01	90.9%	100.0%

ECOD (11)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4956224	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.77	73.0	4.92e-01	98.7%	91.1%
4942685	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.77	72.0	4.22e-01	97.4%	45.2%
5017083	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.76	70.0	4.58e-01	96.1%	85.2%
4282509	2484.1.1.0 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like	0.76	72.0	4.14e-01	100.0%	31.5%
4419306	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.74	70.0	4.88e-01	98.7%	93.3%
4100823	4970.1.1.1 ↗	alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › DNA_pol_B	0.74	68.0	4.60e-01	98.7%	83.6%
4958554	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.73	68.0	4.69e-01	100.0%	96.6%
5040510	304.48.1.3 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B	0.69	65.0	4.39e-01	100.0%	93.9%
3275832	4.1.1.104 ↗	beta barrels › SH3 › SH3 › SH3 › KN17_SH3	0.52	32.0	3.71e-01	89.6%	87.3%
4068333	4.1.1.97 ↗	beta barrels › SH3 › SH3 › SH3 › DUF150_C	0.51	35.0	3.74e-01	96.1%	84.6%
3937333	4.1.1.0 ↗	beta barrels › SH3 › SH3 › SH3	0.50	30.0	2.99e-01	85.7%	57.5%

D6 medium residues 707-756

PDB

Domain cluster: rep: DNA_polymerase__YP_006908614__Epinotia_aporema_granulovirus__166056__D718-761

D7 medium residues 984-1041

PDB

Domain cluster: representative