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DNA_topoisomerase_II

Euk-Vir

Anopheles_minimus_iridovirus

DNA_topoisomerase_II__YP_009021205__Anopheles_minimus_iridovirus__1465751

Identity

Accession:
YP_009021205 ↗
Protein ID:
DNA_topoisomerase_II
Kingdom:
euk

Quality

86.1 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 251-396
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00204.32 best DNA_gyraseB 63.4 2.60e-17 98.0% 63.2%
D2 high residues 416-554_590-679
PDB
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01751.29 best Toprim 27.4 4.40e-06 53.7% 91.7%
PF16898.11 TOPRIM_C 48.2 1.80e-12 40.6% 68.0%
D3 high residues 691-770
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00521.27 best DNA_topoisoIV 59.8 3.40e-16 95.0% 14.8%
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1bjtA05 3.90.199.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase II; domain 5 › Topoisomerase II, domain 5 0.82 77.0 5.26e-01 100.0% 34.5%
2xcqA02 3.90.199.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase II; domain 5 › Topoisomerase II, domain 5 0.80 74.0 5.00e-01 100.0% 31.0%
5nl9A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.80 61.0 6.02e-01 100.0% 76.2%
3mwmA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.79 60.0 6.24e-01 100.0% 85.3%
4mtdD01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.77 56.0 5.42e-01 100.0% 69.3%
4rayA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.77 58.0 5.70e-01 100.0% 75.3%
4etsA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.76 56.0 5.44e-01 100.0% 71.3%
1p6rA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.76 55.0 5.46e-01 100.0% 74.4%
2co5A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.74 56.0 5.35e-01 100.0% 69.6%
2ma3A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.74 55.0 5.32e-01 100.0% 71.6%
3x1oA00 1.20.120.1790 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 59.0 4.78e-01 100.0% 47.7%
3r0aA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.72 54.0 4.69e-01 100.0% 53.3%
3e1sA01 1.10.10.2220 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.72 60.0 5.66e-01 100.0% 76.8%
3gz5B02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.70 50.0 5.22e-01 96.2% 81.1%
6qpqB00 1.10.10.580 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Structural maintenance of chromosome 1. Chain E 0.70 57.0 5.76e-01 100.0% 88.9%
3cuqA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 57.0 5.68e-01 100.0% 88.9%
3elkA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 54.0 5.01e-01 100.0% 65.7%
2dk5A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.69 50.0 5.41e-01 100.0% 93.9%
4ye6A02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.68 47.0 5.32e-01 77.5% 98.3%
4ad9A02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.68 54.0 5.35e-01 100.0% 83.3%
3e3vA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.67 43.0 4.90e-01 98.8% 98.1%
3zcoA00 1.10.10.2450 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.66 60.0 5.12e-01 100.0% 75.6%
2fmlB03 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 47.0 5.15e-01 96.2% 95.3%
1nklA00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.66 43.0 4.40e-01 80.0% 69.2%
4esbA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.65 52.0 4.79e-01 100.0% 68.0%
2kloA00 1.10.10.1420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DNA replication factor Cdt1, C-terminal WH domain 0.63 50.0 4.24e-01 100.0% 51.4%
3tjmA02 1.10.1470.20 Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 0.62 43.0 4.18e-01 72.5% 67.8%
1fpqA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.61 51.0 4.38e-01 100.0% 57.4%
6pw7A01 1.10.238.180 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.61 39.0 4.07e-01 92.5% 69.3%
5zorA01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 38.0 3.98e-01 96.2% 76.7%
2pbxA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 43.0 3.34e-01 87.5% 56.9%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.54 37.0 4.12e-01 93.8% 93.5%
2f33A03 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.54 44.0 4.33e-01 100.0% 83.9%
1tuzA00 1.10.238.110 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Diacylglycerol kinase alpha. 0.53 46.0 4.13e-01 100.0% 69.5%
ECOD (81)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3096548 101.1.2.9 alpha arrays › HTH › HTH › winged helix domain › DNA_topoisoIV 0.89 83.0 6.85e-01 100.0% 66.9%
4238706 101.1.2.9 alpha arrays › HTH › HTH › winged helix domain › DNA_topoisoIV 0.86 81.0 5.28e-01 100.0% 28.2%
3768919 4016.1.1.1 alpha bundles › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › alpha-helical domain in type II DNA topoisomerase › DNA_topoisoIV 0.86 81.0 5.29e-01 100.0% 28.7%
1165372 101.1.2.9 alpha arrays › HTH › HTH › winged helix domain › DNA_topoisoIV 0.85 80.0 6.54e-01 100.0% 62.3%
3594651 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.84 79.0 6.58e-01 100.0% 66.2%
4997662 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.82 63.0 5.61e-01 100.0% 59.1%
3519118 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.81 57.0 5.85e-01 100.0% 77.3%
4991298 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.81 59.0 5.98e-01 100.0% 77.5%
4304583 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.80 60.0 6.57e-01 100.0% 96.9%
5046890 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.80 64.0 5.29e-01 100.0% 49.3%
5044560 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.80 62.0 4.37e-01 100.0% 28.7%
5073138 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.80 63.0 5.57e-01 100.0% 59.1%
5077327 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.79 58.0 6.36e-01 100.0% 96.9%
4948021 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.79 58.0 5.84e-01 100.0% 77.5%
5042147 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.79 58.0 5.81e-01 100.0% 77.5%
5054311 101.1.2.181 alpha arrays › HTH › HTH › winged helix domain › MCM_C 0.79 58.0 5.59e-01 100.0% 69.7%
3744259 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.78 65.0 5.47e-01 100.0% 55.4%
5035624 101.1.2.54 alpha arrays › HTH › HTH › winged helix domain › Penicillinase_R 0.78 60.0 5.97e-01 100.0% 78.8%
3499387 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.77 62.0 5.58e-01 100.0% 63.6%
3225058 101.1.2.566 alpha arrays › HTH › HTH › winged helix domain › CDT1, CDT1_C 0.77 64.0 4.16e-01 100.0% 22.2%
3830447 101.1.2.397 alpha arrays › HTH › HTH › winged helix domain › WHD_MCM8 0.77 57.0 5.73e-01 100.0% 78.8%
4938040 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.76 58.0 4.68e-01 100.0% 43.3%
3383404 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.76 63.0 5.77e-01 100.0% 69.2%
3552400 101.1.2.566 alpha arrays › HTH › HTH › winged helix domain › CDT1, CDT1_C 0.76 62.0 4.18e-01 100.0% 24.5%
3841412 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.76 62.0 5.46e-01 100.0% 61.7%
5077611 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.75 55.0 4.76e-01 100.0% 49.6%
3467284 101.1.2.154 alpha arrays › HTH › HTH › winged helix domain › CDT1_C 0.75 62.0 5.58e-01 100.0% 66.7%
3414623 101.1.2.566 alpha arrays › HTH › HTH › winged helix domain › CDT1, CDT1_C 0.74 61.0 4.08e-01 100.0% 24.1%
3942501 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.74 60.0 5.78e-01 100.0% 77.8%
3392763 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.74 59.0 5.81e-01 100.0% 81.2%
3924465 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.74 67.0 5.80e-01 100.0% 67.5%
4934296 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.73 62.0 5.61e-01 100.0% 69.5%
3239643 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.73 55.0 5.95e-01 100.0% 100.0%
4972260 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.72 60.0 5.67e-01 100.0% 75.8%
5023957 101.1.2.280 alpha arrays › HTH › HTH › winged helix domain › HTH_12 0.72 54.0 5.50e-01 100.0% 81.2%
3744213 101.1.2.57 alpha arrays › HTH › HTH › winged helix domain › EAP30 0.72 58.0 4.87e-01 100.0% 50.7%
3267096 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.72 55.0 5.81e-01 100.0% 92.9%
5022936 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.72 56.0 5.07e-01 100.0% 61.8%
4943074 101.1.2.57 alpha arrays › HTH › HTH › winged helix domain › EAP30 0.72 58.0 4.73e-01 100.0% 47.3%
4998818 247.1.1.1 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.71 61.0 3.99e-01 100.0% 22.4%
2417725 101.1.2.467 alpha arrays › HTH › HTH › winged helix domain › WHD_Rok 0.71 52.0 4.84e-01 100.0% 61.2%
4978321 101.1.2.57 alpha arrays › HTH › HTH › winged helix domain › EAP30 0.71 57.0 5.49e-01 100.0% 77.8%
3352882 101.7.1.1 alpha arrays › HTH › DEK-C › DEK-C › DEK_C 0.71 48.0 5.09e-01 81.2% 80.0%
3697342 101.1.2.33 alpha arrays › HTH › HTH › winged helix domain › TFIIE_beta 0.71 53.0 5.45e-01 100.0% 85.3%
3613894 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.70 62.0 4.30e-01 100.0% 29.8%
1167050 101.1.2.145 alpha arrays › HTH › HTH › winged helix domain › HHH_4 0.70 60.0 4.87e-01 100.0% 51.7%
5048466 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.70 56.0 4.60e-01 100.0% 49.3%
5049103 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.69 57.0 5.83e-01 100.0% 96.0%
3615532 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.69 53.0 5.33e-01 100.0% 82.5%
4339648 101.1.2.852 alpha arrays › HTH › HTH › winged helix domain › PF27213 0.68 53.0 5.01e-01 97.5% 70.5%
3230219 101.1.2.10 alpha arrays › HTH › HTH › winged helix domain › Linker_histone 0.68 55.0 5.41e-01 100.0% 83.5%
4025053 101.1.2.166 alpha arrays › HTH › HTH › winged helix domain › MCM6_C 0.68 62.0 5.84e-01 100.0% 87.4%
5071343 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.68 53.0 5.08e-01 100.0% 71.6%
3648804 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.68 61.0 5.41e-01 100.0% 72.2%
3739094 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.68 48.0 5.22e-01 100.0% 90.8%
3739861 101.1.2.198 alpha arrays › HTH › HTH › winged helix domain › ORC1_wHTH 0.67 60.0 5.31e-01 100.0% 72.2%
4175293 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.67 56.0 5.51e-01 100.0% 87.1%
2611308 7000.1.1.2 alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › RBD_LARS1 0.67 46.0 4.86e-01 81.2% 80.6%
3255111 101.1.2.397 alpha arrays › HTH › HTH › winged helix domain › WHD_MCM8 0.67 49.0 5.25e-01 100.0% 98.5%
4947850 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.66 59.0 5.40e-01 100.0% 77.1%
5035276 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.66 52.0 5.03e-01 96.2% 75.6%
4997248 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.66 56.0 5.19e-01 100.0% 75.0%
3867108 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.66 57.0 4.86e-01 100.0% 64.4%
3817137 101.1.2.57 alpha arrays › HTH › HTH › winged helix domain › EAP30 0.65 54.0 5.01e-01 100.0% 72.0%
4931729 101.1.2.953 alpha arrays › HTH › HTH › winged helix domain › PF29890 0.65 59.0 5.01e-01 100.0% 63.2%
3252021 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.65 55.0 5.52e-01 100.0% 93.8%
3735293 101.1.2.312 alpha arrays › HTH › HTH › winged helix domain › MSC 0.63 55.0 3.83e-01 100.0% 29.6%
3781990 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.63 55.0 5.44e-01 100.0% 91.8%
4379440 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.63 48.0 4.29e-01 100.0% 57.4%
3568884 101.1.2.57 alpha arrays › HTH › HTH › winged helix domain › EAP30 0.63 55.0 4.38e-01 100.0% 51.5%
3723823 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.61 55.0 5.31e-01 100.0% 88.9%
3252984 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.61 45.0 4.42e-01 100.0% 71.1%
3893017 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.60 42.0 4.08e-01 100.0% 63.2%
4040656 101.8.1.2 alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › Anticodon_2 0.60 47.0 3.68e-01 100.0% 38.9%
3784677 101.1.2.312 alpha arrays › HTH › HTH › winged helix domain › MSC 0.60 53.0 3.86e-01 100.0% 37.3%
3700362 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.59 53.0 4.94e-01 100.0% 83.8%
3736681 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.59 46.0 4.59e-01 86.3% 88.2%
3605936 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.59 45.0 4.28e-01 100.0% 67.0%
3569524 108.1.1.48 alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_9 0.59 42.0 4.29e-01 96.2% 76.2%
3691381 101.1.1.65 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_4 0.57 44.0 4.58e-01 100.0% 90.7%
3629936 108.1.1.0 alpha arrays › EF-hand › EF-hand-related › EF-hand 0.57 41.0 4.06e-01 96.2% 70.6%
D4 medium residues 34-75_203-245
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
8iprA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.64 47.0 3.26e-01 78.8% 88.7%
3fhnA04 1.20.58.670 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D 0.60 46.0 4.01e-01 82.4% 93.1%
1whuA00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.59 41.0 3.92e-01 72.9% 75.0%
D5 medium residues 76-126_139-202
PDB