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DNA_polymerase

Euk-Vir

Common_midwife_toad_virus

DNA_polymerase__YP_009508676__Common_midwife_toad_virus__540070

Identity

Accession:: YP_009508676 ↗
Protein ID:: DNA_polymerase
Kingdom:: euk

Quality

81.5 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Iridoviridae› Ranavirus› Common_midwife_toad_virus

TaxID: 540070

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 2-162_416-431

PDB

Domain cluster: rep: DNA_polymerase__YP_010084862__Shrimp_hemocyte_iridescent_virus__2039780__D2-200

D2 high residues 519-584

PDB

Domain cluster: rep: DNA_polymerase__YP_006347653__European_catfish_virus__84739__D519-584

D3 medium residues 166-253

PDB

Domain cluster: rep: DNA_polymerase_elongation_subunit_family_B__YP_010088005__Lymphocystis_disease_virus_4__2704413__D159-241

D4 medium residues 389-415_602-663

PDB

Domain cluster: rep: DNA_polymerase__YP_008052566__Phaeocystis_globosa_virus__251749__D724-746_869-928

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00136.27 best	DNA_pol_B	67.7	1.20e-18	92.1%	14.1%

D5 medium residues 460-515_664-780

PDB

Domain cluster: rep: DNA_polymerase__YP_010084862__Shrimp_hemocyte_iridescent_virus__2039780__D490-509_716-834

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00136.27 best	DNA_pol_B	64.3	1.30e-17	75.1%	28.7%
PF00136.27	DNA_pol_B	44.4	1.40e-11	33.5%	9.3%

D6 medium residues 781-826_921-1013

PDB

D7 medium residues 827-920

PDB

Domain cluster: rep: archaeal_DNA_polymerase_I__YP_009021128__Anopheles_minimus_iridovirus__1465751__D870-955

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3dxlA02	1.10.238.20	Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain	0.56	46.0	4.00e-01	92.6%	70.4%
3mhsB00	1.10.246.140	Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › ENY2/SUS1	0.56	37.0	3.77e-01	86.2%	69.2%
1ekjA00	3.40.1050.10	Alpha Beta › 3-Layer(aba) Sandwich › Beta-carbonic Anhydrase; Chain A › Carbonic anhydrase	0.53	46.0	3.56e-01	95.7%	78.6%
1zvwA01	1.20.970.10	Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C	0.50	34.0	3.93e-01	75.5%	98.5%

ECOD (12)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3940761	108.1.1.1 ↗	alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1	0.55	42.0	3.96e-01	81.9%	89.6%
4243573	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.53	34.0	4.04e-01	74.5%	95.4%
3227366	5001.1.1.1 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1	0.53	42.0	2.88e-01	88.3%	78.9%
4610075	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.53	34.0	3.98e-01	72.3%	93.8%
4641265	4095.1.1.1 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N	0.53	30.0	2.97e-01	81.9%	47.6%
5040761	4095.1.1.0 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain	0.52	30.0	3.23e-01	83.0%	65.0%
4997951	604.12.1.0 ↗	alpha bundles › Spectrin repeat-like › MIT domain › MIT domain	0.52	26.0	3.26e-01	75.5%	80.0%
4127991	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.52	34.0	3.91e-01	73.4%	95.4%
277273	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.52	32.0	3.64e-01	72.3%	83.1%
5042666	4095.1.1.1 ↗	alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_N	0.51	30.0	2.94e-01	80.9%	50.0%
4355361	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.51	33.0	3.80e-01	73.4%	90.0%
4058002	184.1.1.1 ↗	alpha arrays › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Nucleoside phosphorylase/phosphoribosyltransferase-N › Glycos_trans_3N	0.51	32.0	3.75e-01	71.3%	92.3%