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NC_028805.1__YP_009199114.1__AVV11_gp138__00053

Bact-Vir

NC_028805.1__YP_009199114.1__AVV11_gp138__00053

Identity

Accession:
NC_028805 ↗
Kingdom:
phage

Quality

90.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Jenstvirus› Brevibacillus_phage_Jenst

TaxID: 1691954

Cluster

Singleton — not in a non-trivial cluster

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 3-84
PDB
Domain cluster: rep: IMGVR_UViG_3300021488_000008-3300021488-Ga0190305_100017515__D59-140
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF13495.13 best Phage_int_SAM_4 40.9 2.90e-10 98.8% 91.8%
PF02899.24 Phage_int_SAM_1 63.9 1.80e-17 97.6% 96.4%
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2a3vB01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.90 84.0 7.97e-01 98.8% 86.2%
4a8eA01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.89 76.0 7.47e-01 98.8% 85.1%
1xo0A01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.81 76.0 6.72e-01 98.8% 73.9%
2kj8A00 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.73 64.0 5.70e-01 100.0% 67.8%
3f4mA00 1.20.1440.160 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like 0.69 61.0 5.02e-01 100.0% 79.2%
3g3oA00 3.20.100.30 Alpha Beta › Alpha-Beta Barrel › mRNA Triphosphatase Cet1; Chain A › VTC, catalytic tunnel domain 0.68 62.0 4.21e-01 100.0% 37.4%
3e3vA03 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 44.0 5.10e-01 70.7% 96.4%
4ip8A00 1.10.132.110 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein 0.67 47.0 4.30e-01 74.4% 57.1%
2klqA00 1.20.58.870 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 53.0 4.79e-01 92.7% 64.0%
1zp2A01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.64 44.0 4.01e-01 73.2% 80.9%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.63 48.0 4.47e-01 98.8% 65.0%
1sxjD03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.62 38.0 3.73e-01 90.2% 56.0%
4hehA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.62 46.0 4.66e-01 79.3% 78.3%
1sxjB03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.61 39.0 3.75e-01 70.7% 56.5%
1sqgA01 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.61 50.0 4.26e-01 100.0% 53.2%
1td6A03 1.10.472.40 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Hypothetical protein mg237 homolog; domain 3 0.61 42.0 4.06e-01 100.0% 64.1%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.61 33.0 3.62e-01 100.0% 63.6%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.61 46.0 4.20e-01 80.5% 72.2%
1ecaA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.60 46.0 3.94e-01 82.9% 99.3%
3icxA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.60 36.0 3.76e-01 100.0% 64.0%
1aisB01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.59 45.0 4.27e-01 81.7% 96.0%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.59 44.0 4.50e-01 78.0% 83.3%
1c9bA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.59 45.0 4.31e-01 81.7% 94.8%
1x46A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 48.0 3.96e-01 90.2% 97.3%
4ga4A01 1.20.970.10 Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C 0.58 32.0 3.51e-01 73.2% 65.7%
1ng6A01 1.10.1510.10 Mainly Alpha › Orthogonal Bundle › Hypothetical Protein Yqey; Chain: A; domain1 › Uncharacterised protein YqeY/AIM41, N-terminal domain 0.57 48.0 4.69e-01 93.9% 96.7%
3bulA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.57 41.0 4.03e-01 75.6% 75.9%
2hpsA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.56 49.0 3.84e-01 100.0% 53.8%
6xm1A02 3.90.830.10 Alpha Beta › Alpha-Beta Complex › Syntaxin Binding Protein 1; Chain A, domain 2 › Sec1/Munc18 (SM) protein, domain 3a 0.56 49.0 4.47e-01 100.0% 96.5%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 47.0 4.79e-01 97.6% 95.1%
5xd6B02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.54 44.0 3.44e-01 90.2% 47.9%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 39.0 3.88e-01 75.6% 98.8%
7zvsA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.54 44.0 3.46e-01 89.0% 60.5%
3whjA00 6.10.140.1710 Special › Helix non-globular › Helix Hairpins › 0.54 39.0 3.50e-01 75.6% 72.1%
2x3mA00 1.25.40.670 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 44.0 3.67e-01 98.8% 68.1%
5xs2B02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.53 46.0 4.00e-01 100.0% 65.9%
5mmjb02 1.10.287.610 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.52 28.0 3.45e-01 91.5% 82.7%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.52 36.0 3.71e-01 100.0% 76.3%
3deeA01 1.10.150.690 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DUF2063 0.52 37.0 3.72e-01 100.0% 73.3%
1zp2A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.51 43.0 3.94e-01 100.0% 70.5%
2nyvA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.51 34.0 3.77e-01 100.0% 90.6%
4lqkA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.51 40.0 3.53e-01 90.2% 56.8%
7bi4A01 1.25.40.70 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Phosphatidylinositol 3-kinase, accessory domain (PIK) 0.50 33.0 2.58e-01 78.0% 29.0%
4ihuA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.50 37.0 2.89e-01 80.5% 75.6%
1qv9A02 6.10.140.120 Special › Helix non-globular › Helix Hairpins › 0.50 38.0 3.58e-01 86.6% 65.0%
5cbgA00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 43.0 4.10e-01 100.0% 86.3%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4199344 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.98 95.0 8.22e-01 100.0% 79.1%
4142699 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.98 92.0 8.48e-01 100.0% 80.0%
3504160 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.97 94.0 8.27e-01 100.0% 76.4%
4069480 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.97 93.0 8.23e-01 100.0% 76.4%
4130034 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.97 93.0 8.23e-01 100.0% 76.4%
4566333 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.96 94.0 8.59e-01 100.0% 83.0%
4362692 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.96 92.0 8.49e-01 100.0% 85.0%
4566550 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.95 90.0 8.33e-01 100.0% 81.0%
4168571 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.95 92.0 8.13e-01 100.0% 77.3%
4473841 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.95 92.0 8.27e-01 100.0% 79.0%
4487415 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.95 91.0 7.90e-01 100.0% 73.0%
4097981 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.95 91.0 8.20e-01 100.0% 79.0%
3969537 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.94 90.0 8.31e-01 100.0% 84.0%
4579981 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.94 91.0 8.01e-01 100.0% 75.5%
4520087 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.94 90.0 8.33e-01 100.0% 83.0%
4465167 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.94 90.0 7.97e-01 100.0% 80.9%
4406523 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.94 90.0 7.99e-01 100.0% 74.5%
4964250 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.93 88.0 7.66e-01 100.0% 70.4%
5052501 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.93 89.0 8.19e-01 100.0% 82.0%
4063794 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.93 89.0 7.86e-01 100.0% 75.5%
4655797 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.93 89.0 8.35e-01 100.0% 86.3%
4966681 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.92 85.0 8.65e-01 97.6% 98.8%
4396981 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.92 88.0 8.10e-01 100.0% 82.0%
5081377 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.91 86.0 7.91e-01 98.8% 81.0%
4220256 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.91 86.0 7.62e-01 100.0% 75.5%
3945277 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.90 85.0 7.70e-01 98.8% 77.1%
299159 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.90 84.0 7.67e-01 98.8% 78.6%
5081699 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.90 84.0 8.08e-01 98.8% 90.0%
4992938 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.89 72.0 6.94e-01 98.8% 76.7%
5080068 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.88 77.0 7.18e-01 98.8% 77.0%
4959578 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.86 75.0 7.15e-01 98.8% 81.1%
3517981 186.1.1.11 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_2 0.86 81.0 7.32e-01 98.8% 77.1%
5038794 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.84 77.0 7.35e-01 98.8% 86.2%
4999471 186.1.1.1 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_1 0.84 78.0 6.77e-01 100.0% 69.2%
5033941 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.82 65.0 7.01e-01 85.4% 100.0%
5055663 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.81 73.0 6.20e-01 100.0% 62.3%
3587238 186.1.1.3 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_5 0.80 71.0 6.51e-01 100.0% 75.2%
4061722 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.79 71.0 6.27e-01 100.0% 69.6%
2095614 612.1.1.5 ↗ alpha arrays › Retroviral matrix proteins › Retroviral matrix proteins › Retroviral matrix proteins › Retro_M 0.63 55.0 5.12e-01 100.0% 77.9%
3448615 101.1.1.121 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_3 0.63 47.0 4.42e-01 79.3% 68.0%
4978572 604.17.1.1 ↗ alpha bundles › Spectrin repeat-like › MTH_863 C-terminal domain-like › MTH_863 C-terminal domain-like › DUF447_C 0.63 35.0 3.83e-01 97.6% 65.2%
4443691 650.1.1.0 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain 0.62 47.0 4.78e-01 84.1% 83.7%
4045490 606.1.1.0 ↗ alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.60 45.0 4.34e-01 100.0% 69.5%
3837931 160.1.1.0 ↗ alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase 0.58 38.0 3.59e-01 100.0% 55.0%
3408165 4033.1.1.0 ↗ alpha arrays › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like › Acyl-CoA dehydrogenase N-terminal domain-like 0.57 48.0 4.11e-01 92.7% 79.3%
3382499 3755.3.1.308 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › DUF629 0.57 43.0 3.41e-01 81.7% 43.4%
3622876 3651.1.1.0 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain 0.56 41.0 3.53e-01 79.3% 77.0%
3528012 4106.1.1.1 ↗ few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC 0.54 42.0 3.23e-01 89.0% 87.6%
4527308 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 38.0 2.72e-01 75.6% 85.7%
3958866 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.53 42.0 3.43e-01 95.1% 46.0%
3915619 7015.1.1.1 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › DHHC 0.53 43.0 3.11e-01 89.0% 62.9%
3935238 108.1.1.35 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_13 0.53 41.0 3.62e-01 82.9% 70.8%
1551310 633.25.1.1 ↗ alpha bundles › Bromodomain-like › Lpg0393 helical domain › Lpg0393 helical domain › HBD 0.53 40.0 3.80e-01 97.6% 67.7%
3589463 2498.1.1.29 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.52 46.0 3.77e-01 100.0% 94.8%
3691308 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.52 35.0 3.32e-01 100.0% 58.0%
3177396 109.4.1.237 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Wap1 0.50 38.0 2.46e-01 80.5% 26.6%
D2 high residues 111-283
PDB
Domain cluster: rep: IMGVR_UViG_3300009506_002638-3300009506-Ga0118657_1006709312__D23-176
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00589.28 best Phage_integrase 132.4 2.00e-38 95.4% 95.3%