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DNA_topoisomerase_II

Euk-Vir

Ostreococcus_tauri_virus_2

DNA_topoisomerase_II__YP_004063644__Ostreococcus_tauri_virus_2__696472

Identity

Accession:: YP_004063644 ↗
Protein ID:: DNA_topoisomerase_II
Kingdom:: euk

Quality

89.6 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Algavirales› Phycodnaviridae› Prasinovirus› Ostreococcus_tauri_virus_2

TaxID: 696472

Cluster

View cluster (39 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 244-383

PDB

Domain cluster: rep: DNA_gyrase_subunit_B__YP_009352802__Kaumoebavirus_Viruses.__X__D311-415

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00204.32 best	DNA_gyraseB	52.6	5.40e-14	97.1%	54.6%

D2 high residues 391-535_571-662

PDB

Domain cluster: rep: DNA_topoisomerase_2__YP_009162467__Salmon_gill_poxvirus__1680908__D385-517_553-621_640-664

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF01751.29 best	Toprim	30.4	5.00e-07	48.9%	84.4%
PF16898.11	TOPRIM_C	72.7	4.60e-20	40.5%	67.2%

D3 high residues 959-1071

PDB

Domain cluster: rep: MH494197.1__AXC39168.1__X__00456__D116-252

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00521.27 best	DNA_topoisoIV	32.8	5.20e-08	99.1%	26.5%

D4 medium residues 23-57_206-238

PDB

Domain cluster: representative

CATH (13)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1pvgA01	3.30.565.10	Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain	0.96	92.0	5.95e-01	100.0%	86.9%
1l1lA01	3.20.70.20	Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain ›	0.59	48.0	2.90e-01	92.6%	79.3%
2b9dA01	3.30.160.330	Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain ›	0.58	35.0	3.92e-01	91.2%	100.0%
4bd9B01	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.58	35.0	3.92e-01	75.0%	75.9%
5yv7A00	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.58	37.0	3.99e-01	73.5%	75.0%
6q61A00	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.57	37.0	3.95e-01	79.4%	76.3%
1tocR02	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.56	33.0	3.50e-01	83.8%	65.5%
5jm6A02	2.30.250.10	Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2	0.55	39.0	3.14e-01	75.0%	80.4%
4c0fC00	2.30.30.1020	Mainly Beta › Roll › SH3 type barrels. › CCR4-NOT complex subunit 2/3/5, C-terminal domain	0.54	36.0	3.08e-01	98.5%	41.1%
4dyoA02	2.30.250.10	Mainly Beta › Roll › Aminopeptidase i, Domain 2 › Aminopeptidase i, Domain 2	0.54	38.0	3.12e-01	75.0%	79.9%
1hyhC02	3.90.110.10	Alpha Beta › Alpha-Beta Complex › L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 › Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal	0.53	40.0	3.06e-01	80.9%	86.0%
2bs2B01	3.10.20.30	Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain	0.51	36.0	3.18e-01	76.5%	98.1%
1fneA01	3.10.320.10	Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1	0.50	35.0	3.32e-01	72.1%	86.1%

ECOD (20)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4617838	225.1.1.3 ↗	a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c	0.95	90.0	5.87e-01	100.0%	87.8%
3594649	225.1.1.0 ↗	a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	0.94	90.0	5.85e-01	100.0%	87.8%
3789605	225.1.1.0 ↗	a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase	0.94	89.0	5.83e-01	100.0%	87.3%
3586434	4.1.1.41 ↗	beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C	0.66	36.0	2.70e-01	72.1%	22.5%
3978692	101.1.9.143 ↗	alpha arrays › HTH › HTH › Putative DNA-binding domain › Virulence_RhuM	0.60	43.0	3.32e-01	75.0%	76.0%
3270655	5001.1.1.5 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3	0.59	44.0	2.93e-01	79.4%	75.8%
5060285	109.4.1.5 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1	0.58	39.0	2.69e-01	70.6%	21.8%
4943803	2007.1.1.0 ↗	a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like	0.56	46.0	3.11e-01	92.6%	70.0%
3762127	7516.1.1.88 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › TAGT	0.56	45.0	2.98e-01	97.1%	68.2%
3247422	384.1.1.1 ↗	few secondary structure elements › BPTI-like › BPTI-like › BPTI-like › Kunitz_BPTI	0.53	37.0	3.53e-01	91.2%	59.5%
3328712	4964.1.1.0 ↗	alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I	0.53	43.0	3.05e-01	94.1%	100.0%
3899483	3226.1.1.3 ↗	alpha complex topology › Uracil Transporter UraA › Uracil Transporter UraA › Uracil Transporter UraA › HCO3_cotransp	0.53	41.0	2.42e-01	85.3%	69.9%
3728856	171.1.1.9 ↗	alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3, Ribonucleas_3_3	0.52	38.0	2.73e-01	79.4%	87.1%
1308290	502.1.1.2 ↗	a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › T4_UVSX_C	0.52	41.0	3.86e-01	88.2%	90.5%
3649913	5050.1.1.58 ↗	alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › NFD4_C	0.52	36.0	2.71e-01	72.1%	48.2%
3234667	5001.1.1.41 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw	0.51	38.0	2.49e-01	79.4%	66.0%
3441614	2003.1.5.0 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases	0.51	38.0	2.88e-01	82.4%	66.5%
5018200	2004.1.1.220 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SWI2_SNF2	0.51	38.0	2.33e-01	83.8%	25.4%
3343334	101.1.2.98 ↗	alpha arrays › HTH › HTH › winged helix domain › CDT1	0.51	36.0	2.80e-01	95.6%	35.2%
4810251	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.50	39.0	2.76e-01	89.7%	56.8%

D5 medium residues 58-205

PDB

Domain cluster: rep: IMGVR_UViG_3300039190_000305-3300039190-Ga0399989_003201_3_1937__D82-97_167-336

D6 medium residues 667-794

PDB

Domain cluster: rep: DNA_topoisomerase_2__YP_009162467__Salmon_gill_poxvirus__1680908__D669-796

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00521.27 best	DNA_topoisoIV	159.2	2.30e-46	100.0%	29.2%

D7 medium residues 861-925

PDB

Domain cluster: rep: IMGVR_UViG_3300007985_000017-3300007985-Ga0100381_100027569__D212-299