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NC_062753.1__YP_010357465.1__M1M31_gp23__00023

Bact-Vir

NC_062753.1__YP_010357465.1__M1M31_gp23__00023

Identity

Accession:
NC_062753 ↗
Kingdom:
phage

Quality

89.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Assiduviridae› Nekkelsvirus› Cellulophaga_phage_Nekkels_1

TaxID: 2745692

Cluster

View cluster (5 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 7-71
PDB
Domain cluster: rep: MK448768.1__QBX19141.1__Javan47_0028__00028__D6-59
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF03592.22 best Terminase_2 42.7 1.20e-10 95.4% 34.4%
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cmpA00 1.10.10.1400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Terminase, small subunit, N-terminal DNA-binding domain, HTH motif 0.90 74.0 7.95e-01 87.7% 100.0%
2yusA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.72 47.0 5.09e-01 75.4% 83.0%
3vfzB00 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 5.10e-01 80.0% 77.8%
2lfwA01 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.68 50.0 3.88e-01 86.2% 36.2%
4l0cA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.66 45.0 3.02e-01 72.3% 18.1%
2iw5B00 1.20.58.1880 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 53.0 4.21e-01 95.4% 42.9%
1a04A02 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 55.0 5.17e-01 98.5% 77.5%
3p7nA02 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 0.64 54.0 5.30e-01 100.0% 87.5%
5xsoA02 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 0.64 55.0 5.27e-01 98.5% 84.2%
2nogB02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.62 51.0 5.03e-01 95.4% 92.9%
1p4wA00 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 52.0 4.79e-01 100.0% 75.9%
2ifcA01 1.10.580.10 Mainly Alpha › Orthogonal Bundle › Citrate Synthase; domain 1 › Citrate Synthase, domain 1 0.59 49.0 3.46e-01 100.0% 99.2%
2q0oA02 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 0.59 50.0 4.99e-01 98.5% 100.0%
2k9sA00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 45.0 3.86e-01 87.7% 50.5%
2rdpA00 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 0.58 49.0 3.94e-01 98.5% 54.3%
2qjoA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.58 49.0 3.59e-01 98.5% 75.0%
4nqwA02 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 0.58 42.0 4.31e-01 81.5% 81.2%
3k40A02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.57 41.0 2.77e-01 78.5% 61.6%
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.56 40.0 4.32e-01 78.5% 98.1%
5zyrA02 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 0.56 48.0 3.71e-01 98.5% 50.3%
3tjmA02 1.10.1470.20 Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 0.56 40.0 3.68e-01 78.5% 100.0%
3h37A03 1.20.58.1960 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 44.0 3.60e-01 92.3% 70.3%
2kjgA00 1.20.120.970 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.54 46.0 4.08e-01 100.0% 69.7%
3rgoA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.52 43.0 3.39e-01 98.5% 54.8%
5xe7A01 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.52 44.0 3.51e-01 98.5% 80.3%
2of5H00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.51 36.0 3.20e-01 75.4% 91.0%
2qqpA01 6.10.350.10 Special › Helix non-globular › V-type ATP synthase subunit C fold › 0.50 38.0 3.95e-01 90.8% 91.4%
ECOD (73)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4321283 101.1.1.378 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Terminase_2 0.97 79.0 8.60e-01 87.7% 100.0%
3165050 101.1.1.378 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Terminase_2 0.91 82.0 7.96e-01 95.4% 95.7%
5082527 101.1.3.2 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Terminase_2 0.86 71.0 6.10e-01 89.2% 61.0%
3517677 101.1.3.0 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.82 65.0 6.58e-01 93.8% 86.2%
3738676 101.1.1.207 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF6581 0.75 63.0 5.32e-01 93.8% 63.6%
3247642 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.74 59.0 5.57e-01 95.4% 73.1%
3893828 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.74 47.0 4.04e-01 75.4% 41.0%
4019403 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.73 54.0 5.45e-01 86.2% 80.0%
3744347 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.73 59.0 5.53e-01 95.4% 72.5%
3185929 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.72 58.0 5.42e-01 95.4% 71.2%
3785701 101.1.2.361 ↗ alpha arrays › HTH › HTH › winged helix domain › Myb_DNA-binding 0.72 56.0 5.41e-01 90.8% 74.7%
3486933 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.71 57.0 5.37e-01 95.4% 72.5%
3900411 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.71 57.0 5.18e-01 95.4% 65.2%
3654479 101.1.2.361 ↗ alpha arrays › HTH › HTH › winged helix domain › Myb_DNA-binding 0.71 57.0 5.21e-01 95.4% 67.1%
3210083 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.71 47.0 4.92e-01 81.5% 75.0%
3757222 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.71 53.0 5.68e-01 87.7% 96.4%
3244330 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.71 51.0 4.80e-01 84.6% 62.5%
3205204 101.1.1.67 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_6 0.71 46.0 4.92e-01 76.9% 79.6%
3394043 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.71 47.0 4.37e-01 75.4% 55.0%
3668069 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.70 56.0 5.82e-01 95.4% 95.0%
3628396 101.1.1.69 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_7 0.70 52.0 5.20e-01 81.5% 80.0%
3201282 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.70 48.0 4.84e-01 81.5% 72.3%
3314993 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.69 48.0 5.15e-01 80.0% 85.5%
3577058 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.69 54.0 5.28e-01 93.8% 80.0%
3276977 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.69 49.0 4.52e-01 78.5% 57.6%
3743273 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 53.0 5.48e-01 90.8% 91.7%
3298990 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.69 50.0 4.73e-01 89.2% 63.7%
3588264 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 55.0 4.92e-01 86.2% 71.1%
3790320 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.69 53.0 5.30e-01 92.3% 86.2%
3617914 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.68 53.0 5.23e-01 93.8% 80.0%
3914141 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.68 51.0 5.45e-01 89.2% 96.4%
3726460 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.68 52.0 5.36e-01 90.8% 91.7%
3172297 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.68 49.0 5.07e-01 83.1% 85.0%
3618722 101.31.1.2 ↗ alpha arrays › HTH › Bacteriophage Sf6 terminase small subunit › Bacteriophage Sf6 terminase small subunit › Swi3 0.67 54.0 5.10e-01 89.2% 97.5%
2035564 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.67 53.0 5.23e-01 95.4% 81.7%
4027833 101.1.1.69 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_7 0.67 51.0 4.86e-01 95.4% 68.8%
3771267 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.67 54.0 5.26e-01 95.4% 81.4%
3483711 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.66 50.0 5.28e-01 83.1% 98.2%
4537351 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.66 44.0 4.72e-01 81.5% 80.0%
5011194 101.1.6.0 ↗ alpha arrays › HTH › HTH › TrpR 0.66 49.0 5.03e-01 87.7% 86.7%
3976103 101.1.3.1 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › GerE 0.66 58.0 5.82e-01 100.0% 100.0%
3378419 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.66 51.0 4.66e-01 87.7% 63.3%
3361745 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.65 53.0 5.26e-01 93.8% 87.1%
4281319 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.65 47.0 4.10e-01 81.5% 48.6%
3798378 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.65 51.0 4.96e-01 93.8% 77.3%
3394042 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.65 52.0 4.79e-01 95.4% 68.7%
3789410 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.65 53.0 5.21e-01 93.8% 92.9%
4966360 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.64 56.0 5.18e-01 100.0% 88.2%
3201922 101.1.3.15 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like › Myb_DNA-binding 0.64 46.0 4.67e-01 84.6% 78.5%
3514120 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.64 44.0 4.59e-01 89.2% 78.3%
4456068 101.1.1.42 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r4_2 0.63 46.0 4.07e-01 86.2% 52.0%
3264851 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.63 47.0 4.20e-01 84.6% 55.8%
3318615 101.1.1.272 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7952 0.63 46.0 4.86e-01 84.6% 92.7%
3561561 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.63 45.0 4.62e-01 75.4% 81.7%
3785702 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.63 49.0 4.86e-01 90.8% 81.4%
3248755 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.63 49.0 4.55e-01 89.2% 67.1%
5037848 101.1.2.950 ↗ alpha arrays › HTH › HTH › winged helix domain › PF29171 0.63 54.0 5.20e-01 100.0% 92.0%
5062774 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 54.0 4.07e-01 98.5% 47.3%
3682630 101.1.1.272 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7952 0.62 49.0 4.72e-01 92.3% 93.8%
4003410 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.62 49.0 4.05e-01 90.8% 47.5%
3263074 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.61 48.0 4.71e-01 89.2% 80.0%
3243688 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.61 45.0 4.75e-01 89.2% 94.5%
3787785 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.61 40.0 4.54e-01 87.7% 97.8%
3943860 101.1.1.58 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_18 0.60 46.0 4.96e-01 87.7% 100.0%
4000123 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.60 46.0 4.28e-01 84.6% 64.7%
3291671 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.60 47.0 2.83e-01 87.7% 66.7%
4464384 198.2.1.1 ↗ alpha arrays › Saposin-like › Bacteriocin AS-48-related › Bacteriocin AS-48-related › Bacteriocin_IId 0.59 44.0 4.38e-01 84.6% 92.9%
3679854 101.1.1.3 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding 0.59 46.0 4.43e-01 84.6% 84.0%
4173465 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.59 40.0 4.28e-01 83.1% 81.8%
4926890 101.1.2.140 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_AsnC-type 0.59 50.0 4.60e-01 100.0% 92.2%
3385517 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 50.0 4.44e-01 100.0% 94.0%
4224920 101.1.2.26 ↗ alpha arrays › HTH › HTH › winged helix domain › HxlR 0.57 49.0 4.14e-01 100.0% 87.0%
3281571 101.1.2.376 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_67 0.53 44.0 3.64e-01 100.0% 82.3%
D2 high residues 75-150
PDB
Domain cluster: rep: MZ503612.1__QYC52359.1__X__00001__D31-105
CATH (6)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5b55A01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 31.0 2.36e-01 84.2% 19.5%
3wgtA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 38.0 2.82e-01 73.7% 84.8%
1h0hB01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 37.0 3.00e-01 73.7% 50.7%
1zoyA04 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.51 29.0 3.13e-01 84.2% 61.5%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 44.0 3.39e-01 100.0% 75.0%
2b9dA01 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 20.0 2.85e-01 100.0% 74.4%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3466238 206.1.1.14 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.63 43.0 2.65e-01 100.0% 12.0%
3952939 220.1.1.82 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_6 0.61 36.0 3.67e-01 73.7% 58.7%
3941757 101.1.9.32 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT 0.61 43.0 3.59e-01 73.7% 46.2%
3730463 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 43.0 3.73e-01 86.8% 85.4%
3220485 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.55 38.0 2.53e-01 73.7% 33.9%
5043001 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.54 45.0 4.13e-01 96.1% 86.7%
3937747 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 44.0 3.02e-01 93.4% 48.7%
5050213 192.2.1.87 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ATP-synt_D 0.52 44.0 3.43e-01 100.0% 83.2%
4189845 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 0.52 36.0 2.70e-01 73.7% 35.5%
3798829 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 0.50 37.0 2.76e-01 81.6% 88.4%
3589192 101.1.1.68 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_38 0.50 39.0 3.86e-01 88.2% 98.8%