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NC_054721.1__YP_010058516.1__KHO64_gp127__00192

Bact-Vir

NC_054721.1__YP_010058516.1__KHO64_gp127__00192

Identity

Accession:
NC_054721 ↗
Kingdom:
phage

Quality

84.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bixzunavirus› Mycobacterium_phage_Quasimodo

TaxID: 2762409

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 83-163
PDB
Domain cluster: rep: MT701595.1__QPB09713.1__CPT_Shaeky_026__00026__D24-87
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF13392.13 best HNH_3 26.7 4.60e-06 58.0% 95.7%
D2 high residues 178-227
PDB
Domain cluster: rep: NC_028835.1__YP_009201837.1__CL2_42__00042__D139-181
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7wq5A01 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.85 78.0 7.38e-01 100.0% 89.7%
1gccA00 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.83 75.0 6.95e-01 100.0% 82.5%
1ciaA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.75 61.0 4.00e-01 90.0% 34.3%
3nyiA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.71 60.0 4.48e-01 100.0% 65.7%
2cteA01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.70 50.0 4.33e-01 76.0% 89.9%
2khxA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.68 53.0 4.68e-01 92.0% 64.6%
2l2mA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.68 53.0 4.79e-01 88.0% 68.6%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.67 54.0 3.54e-01 90.0% 35.0%
2qz8A02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.66 47.0 4.08e-01 76.0% 81.5%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.65 56.0 4.21e-01 100.0% 67.7%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.65 55.0 4.26e-01 100.0% 63.9%
3ga8A00 3.10.20.860 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.64 47.0 4.36e-01 82.0% 83.6%
1j5yA02 3.30.1340.20 Alpha Beta › 2-Layer Sandwich › Histidine-containing Protein; Chain: A; › 3H domain 0.64 46.0 3.61e-01 76.0% 95.3%
7xinA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.62 45.0 3.55e-01 78.0% 93.6%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.62 43.0 3.09e-01 72.0% 48.2%
1tbxB00 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 40.0 3.26e-01 94.0% 37.8%
2in3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.61 44.0 4.02e-01 88.0% 95.1%
8eg0B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 44.0 2.65e-01 78.0% 18.6%
3cxgA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 47.0 3.73e-01 96.0% 70.5%
1bjxA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.58 43.0 3.50e-01 86.0% 72.7%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 47.0 3.59e-01 92.0% 38.8%
5owcA00 1.20.90.10 Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain 0.57 41.0 3.02e-01 76.0% 45.9%
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.56 43.0 3.66e-01 90.0% 50.5%
5wzoA00 1.20.90.10 Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain 0.56 40.0 2.97e-01 76.0% 46.3%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.55 38.0 3.70e-01 76.0% 65.5%
2bzlA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.55 45.0 2.93e-01 96.0% 70.1%
4a5pB01 3.40.30.60 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › FHIPEP family, domain 1 0.55 39.0 2.96e-01 76.0% 84.8%
1mc2A00 1.20.90.10 Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain 0.55 44.0 3.33e-01 90.0% 80.3%
3trkA01 3.90.70.110 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Alphavirus nsP2 protease domain 0.54 44.0 3.27e-01 92.0% 80.3%
3n7cA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 44.0 3.44e-01 90.0% 42.6%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 42.0 3.53e-01 86.0% 74.1%
4i9fA03 3.30.300.290 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.53 36.0 3.22e-01 74.0% 49.4%
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.53 43.0 3.39e-01 90.0% 95.1%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 38.0 3.21e-01 86.0% 52.4%
2kvkA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.52 42.0 3.17e-01 98.0% 72.9%
3l9fA01 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 0.52 37.0 3.06e-01 94.0% 42.7%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.51 39.0 2.85e-01 94.0% 48.9%
3tqfA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 41.0 2.98e-01 96.0% 47.3%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3965886 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.98 75.0 7.94e-01 80.0% 88.9%
3334492 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.90 75.0 6.32e-01 100.0% 56.2%
3331331 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.87 79.0 6.15e-01 100.0% 49.0%
3827127 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.87 79.0 6.31e-01 100.0% 53.7%
3813458 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.86 72.0 7.25e-01 90.0% 92.0%
3425673 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.86 68.0 6.83e-01 84.0% 84.0%
3468885 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.85 77.0 6.52e-01 100.0% 65.0%
3293480 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.85 78.0 7.09e-01 100.0% 78.5%
3335785 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.84 77.0 7.01e-01 100.0% 80.0%
3467141 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.84 77.0 5.82e-01 100.0% 46.4%
3831192 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.84 76.0 6.32e-01 100.0% 60.0%
3651077 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.84 67.0 5.95e-01 86.0% 68.6%
3380188 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.84 76.0 7.36e-01 100.0% 92.7%
3661849 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.84 76.0 7.00e-01 100.0% 79.4%
3370971 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.83 74.0 6.06e-01 100.0% 65.6%
3682141 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.82 68.0 6.88e-01 90.0% 92.0%
3440839 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.82 74.0 5.83e-01 100.0% 51.0%
3671921 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.82 74.0 7.22e-01 100.0% 96.4%
3327654 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.79 70.0 6.11e-01 100.0% 72.0%
5008107 101.1.2.15 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR 0.74 40.0 3.07e-01 88.0% 25.7%
3272247 242.1.1.1 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_1 0.72 48.0 3.46e-01 70.0% 84.1%
4944466 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.72 63.0 4.73e-01 100.0% 96.0%
3959171 4029.1.1.0 ↗ a+b duplicates or obligate multimers › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like › SSH domain in siroheme synthase middle domains-like 0.72 52.0 5.53e-01 80.0% 97.5%
4944239 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.71 62.0 4.64e-01 100.0% 69.2%
4293539 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.70 56.0 4.80e-01 88.0% 95.0%
3876271 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.70 57.0 5.43e-01 94.0% 86.7%
4995243 3501.1.1.1 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.69 48.0 4.24e-01 72.0% 92.0%
4107951 304.162.1.0 ↗ a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain 0.69 50.0 4.46e-01 76.0% 97.1%
4134161 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.66 57.0 4.27e-01 100.0% 73.3%
4946414 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.66 57.0 4.37e-01 100.0% 73.2%
1933261 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.65 55.0 4.27e-01 100.0% 64.5%
5082053 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 50.0 3.15e-01 88.0% 16.9%
3621644 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.62 47.0 3.93e-01 88.0% 86.0%
3299579 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.62 50.0 4.52e-01 90.0% 72.9%
2755642 167.1.1.1 ↗ alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 0.62 46.0 3.11e-01 82.0% 68.8%
4437052 167.1.1.1 ↗ alpha arrays › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal protein S7 › Ribosomal_S7 0.62 46.0 3.40e-01 84.0% 83.3%
3649366 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.61 43.0 3.70e-01 92.0% 44.7%
3242648 2006.1.6.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.60 46.0 3.24e-01 90.0% 40.0%
3639719 304.8.1.10 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_7 0.60 42.0 3.63e-01 74.0% 83.7%
3723396 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.60 43.0 3.83e-01 80.0% 48.8%
4986859 862.1.1.5 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › LigD_Prim-Pol 0.60 50.0 3.18e-01 98.0% 32.2%
3279594 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.59 39.0 2.85e-01 88.0% 24.3%
3968902 2006.1.6.15 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF58 0.59 45.0 2.98e-01 90.0% 32.9%
3592815 3121.1.1.0 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain 0.58 47.0 3.76e-01 90.0% 68.6%
3946113 241.7.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › YgaC/TfoX-N like › YgaC/TfoX-N like › TfoX_N 0.57 44.0 3.51e-01 86.0% 97.1%
4541289 2002.1.1.154 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Meth_synt_1 0.56 48.0 2.88e-01 100.0% 28.8%
3641337 2485.1.1.1 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.56 46.0 3.73e-01 94.0% 88.0%
5025072 5069.1.1.3 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes › Cyt_bd_oxida_I 0.56 37.0 2.39e-01 70.0% 59.3%
3700687 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.55 42.0 2.62e-01 82.0% 64.7%
3936954 7579.1.1.14 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_3 0.54 46.0 2.99e-01 98.0% 49.8%
4029235 298.1.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.54 43.0 2.95e-01 90.0% 97.4%
4033864 221.10.1.1 ↗ a+b two layers › beta-Grasp › FdhD/NarQ beta-grasp fold domain › FdhD/NarQ beta-grasp fold domain › FdhD-NarQ 0.53 39.0 3.72e-01 86.0% 70.8%
3710998 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.53 43.0 2.50e-01 92.0% 31.0%
4087573 2004.1.1.73 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.52 41.0 2.91e-01 90.0% 26.5%
399248 2011.1.1.6 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M20 0.52 39.0 2.75e-01 84.0% 60.9%
3970771 3009.1.1.0 ↗ alpha arrays › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like 0.52 41.0 2.89e-01 96.0% 53.3%
3349197 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.51 42.0 2.79e-01 94.0% 36.3%
4483596 2007.6.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › PGI 0.51 44.0 2.85e-01 100.0% 33.3%
4681028 2007.6.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › PGI 0.50 43.0 2.84e-01 100.0% 36.2%
3282087 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.50 41.0 2.75e-01 92.0% 80.5%
5022351 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.50 40.0 2.76e-01 90.0% 66.2%