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conserved_DNA_topoisomerase_II

Euk-Vir

Melbournevirus

conserved_DNA_topoisomerase_II__YP_009094655__Melbournevirus__1560514

Identity

Accession:: YP_009094655 ↗
Protein ID:: conserved_DNA_topoisomerase_II
Kingdom:: euk

Quality

86.6 mean pLDDT

Taxonomy

Bamfordvirae› Nucleocytoviricota› Megaviricetes› Pimascovirales› Marseilleviridae› Marseillevirus› Marseillevirus_sp._'Melbournevirus'

TaxID: 1560514

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 253-403

PDB

Domain cluster: rep: topoisomerase_IIA__YP_009001040__Pithovirus_sibericum__1450746__D250-321_335-390

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00204.32 best	DNA_gyraseB	35.8	8.00e-09	72.9%	51.1%

D2 high residues 666-806_828-840

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	149.2	2.50e-43	92.9%	31.3%

D3 high residues 855-940

PDB

Domain cluster: rep: DNA_topoisomerase_II__YP_009173327__Chrysochromulina_ericina_virus__455364__D878-969

D4 medium residues 21-79_215-249

PDB

Domain cluster: representative

CATH (8)

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	0.90	86.0	6.06e-01	100.0%	88.5%
3s8mA00	3.40.50.720	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain	0.54	49.0	3.23e-01	100.0%	46.2%
2b9dA01	3.30.160.330	Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain ›	0.54	24.0	3.46e-01	89.4%	100.0%
4bd9B01	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.53	27.0	3.35e-01	94.7%	79.6%
6q61A00	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.53	28.0	3.34e-01	95.7%	78.0%
4bpxD00	1.20.930.80	Mainly Alpha › Up-down Bundle › Transcription Elongation Factor S-II; Chain A ›	0.53	46.0	3.56e-01	97.9%	84.0%
5yv7A00	4.10.410.10	Few Secondary Structures › Irregular › Factor Xa Inhibitor › Pancreatic trypsin inhibitor Kunitz domain	0.51	28.0	3.24e-01	95.7%	76.7%
3t5tB01	3.40.50.2000	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B;	0.50	38.0	2.80e-01	83.0%	72.8%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3998214	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	0.91	87.0	6.10e-01	100.0%	84.7%
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	0.90	86.0	6.09e-01	100.0%	89.0%
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	0.90	86.0	6.09e-01	100.0%	89.8%
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	0.88	84.0	5.95e-01	100.0%	89.0%
3317524	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	0.76	52.0	3.80e-01	75.5%	29.8%
3305241	2003.1.5.153 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PCMT, Methyltransf_25	0.58	45.0	3.66e-01	84.0%	65.0%
3503534	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	0.54	44.0	3.82e-01	87.2%	77.2%
5026144	1075.1.1.0 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain	0.54	33.0	2.53e-01	86.2%	24.7%
3802871	192.2.1.0 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin	0.51	32.0	3.08e-01	81.9%	56.2%
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	0.50	41.0	2.58e-01	89.4%	39.6%

D5 medium residues 80-214

PDB

Domain cluster: rep: GyrB-like_ATPase_domain_protein__YP_784274__Nile_crocodilepox_virus__1285600__D74-178

D6 medium residues 409-496

PDB

Domain cluster: rep: hypothetical_protein_OlV1_223c__YP_004061855__Ostreococcus_lucimarinus_virus_1__880162__D396-482

D7 medium residues 497-544_602-665

PDB

Domain cluster: rep: gwf1_scaffold_41_prodigal-single.1__X__X__00068__D452-529_580-657

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF16898.11 best	TOPRIM_C	31.4	2.70e-07	73.2%	54.7%

CATH (5)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1tigA00	3.30.110.10	Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Translation initiation factor 3 (IF-3), C-terminal domain	0.56	32.0	3.56e-01	89.3%	70.5%
2xauA03	3.40.50.300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases	0.55	32.0	2.71e-01	83.9%	33.9%
4f1jA00	3.40.50.410	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain	0.52	37.0	3.09e-01	93.8%	41.5%
1l1lA02	3.30.1620.10	Alpha Beta › 2-Layer Sandwich › b-12 dependent (class ii) ribonucleotide reductase, Chain A, Domain 2 › b-12 dependent (class ii) ribonucleotide reductase, Chain A, Domain 2	0.51	34.0	3.41e-01	82.1%	66.1%
4j1qA00	3.40.50.720	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain	0.51	43.0	2.98e-01	94.6%	74.6%

ECOD (8)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3551383	2006.1.3.3 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim,TOPRIM_C	0.94	91.0	6.42e-01	100.0%	64.1%
3213306	2006.1.3.21 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOPRIM_C	0.93	83.0	5.98e-01	92.0%	65.6%
3789608	2006.1.3.0 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain	0.93	90.0	6.44e-01	100.0%	66.2%
3594652	2006.1.3.0 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain	0.92	89.0	6.39e-01	100.0%	66.2%
3520955	2006.1.3.1 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim	0.89	85.0	6.18e-01	100.0%	65.7%
2452014	2006.1.3.1 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim	0.88	65.0	4.92e-01	75.9%	63.6%
None	—		0.71	68.0	5.10e-01	99.1%	66.4%
3817446	2006.1.3.21 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOPRIM_C	0.65	59.0	4.94e-01	95.5%	97.2%

D8 medium residues 969-1088

PDB

Domain cluster: rep: putative_DNA_topoisomerase__YP_294202__Emiliania_huxleyi_virus_86__181082__D963-1088