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NC_074662.1__YP_010773341.1__QIT84_gp048__00048

Bact-Vir

NC_074662.1__YP_010773341.1__QIT84_gp048__00048

Identity

Accession:
NC_074662 ↗
Kingdom:
phage

Quality

85.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Haihevirus› Pseudomonas_phage_PP9W2

TaxID: 2914450

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 4-45
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4fsdA02 3.40.5.100 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.71 61.0 4.89e-01 100.0% 62.8%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.61 49.0 3.55e-01 100.0% 29.1%
1vw4U00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.60 48.0 4.05e-01 100.0% 72.0%
3tqlA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.58 47.0 3.75e-01 100.0% 92.9%
6hrbB01 2.70.150.10 Mainly Beta › Distorted Sandwich › Calcium-transporting ATPase, cytoplasmic transduction domain A › Calcium-transporting ATPase, cytoplasmic transduction domain A 0.58 42.0 3.23e-01 100.0% 31.5%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.57 49.0 4.30e-01 100.0% 66.7%
2d2eA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 42.0 2.70e-01 85.7% 87.4%
5nblA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 44.0 3.12e-01 100.0% 34.0%
4n68A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 46.0 3.60e-01 100.0% 51.5%
4hd5A01 2.60.40.3760 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 44.0 3.52e-01 100.0% 50.5%
5z06B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 45.0 3.60e-01 100.0% 54.3%
2ee2A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 43.0 3.58e-01 100.0% 50.6%
4gxbA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 40.0 3.36e-01 100.0% 45.4%
3f7pD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 3.49e-01 100.0% 52.7%
3nmeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 45.0 3.59e-01 100.0% 50.5%
1x5lA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 3.54e-01 100.0% 55.7%
3nyiB01 3.40.50.10170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 37.0 2.65e-01 85.7% 89.8%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.51 38.0 3.62e-01 100.0% 84.1%
3nuhB02 3.30.300.370 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.51 41.0 3.12e-01 100.0% 47.1%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3229268 3369.1.1.0 ↗ beta meanders › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 0.65 53.0 3.63e-01 100.0% 75.4%
3608367 304.34.1.0 ↗ a+b two layers › Alpha-beta plaits › Nucleoside diphosphate kinases › Nucleoside diphosphate kinases 0.62 49.0 3.92e-01 97.6% 90.0%
3519425 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.61 53.0 4.05e-01 100.0% 52.0%
3263089 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.60 51.0 3.83e-01 100.0% 67.8%
3640318 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 47.0 4.66e-01 100.0% 88.9%
3171365 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.58 45.0 3.25e-01 100.0% 26.5%
3689402 1.1.7.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.57 47.0 3.66e-01 100.0% 68.6%
3325376 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.57 42.0 3.78e-01 100.0% 55.7%
3277696 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.55 46.0 3.94e-01 100.0% 60.3%
3338287 221.1.1.166 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PF26130 0.55 42.0 3.89e-01 100.0% 66.2%
3581044 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.54 44.0 3.69e-01 100.0% 51.8%
4000318 390.1.1.1 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.54 44.0 4.05e-01 100.0% 71.7%
3217685 822.1.1.0 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain 0.54 43.0 3.99e-01 100.0% 70.7%
4547125 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.53 43.0 4.20e-01 100.0% 82.0%
3689809 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 40.0 4.01e-01 95.2% 100.0%
D2 high residues 56-137
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3h4cA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.62 42.0 3.99e-01 82.9% 60.4%
1gnlA01 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.62 35.0 2.93e-01 93.9% 32.4%
1p49A02 1.10.287.550 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.61 37.0 4.23e-01 93.9% 84.7%
1hlvA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 40.0 4.53e-01 97.6% 95.0%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.59 34.0 3.10e-01 90.2% 41.7%
1t6sA01 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 34.0 3.44e-01 98.8% 55.8%
4s2rQ03 3.90.230.10 Alpha Beta › Alpha-Beta Complex › Creatine Amidinohydrolase › Creatinase/methionine aminopeptidase superfamily 0.56 51.0 3.46e-01 100.0% 63.6%
3w6kC00 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 0.54 33.0 3.26e-01 98.8% 57.5%
1xakA00 2.60.40.1550 Mainly Beta › Sandwich › Immunoglobulin-like › SARS coronavirus X4 0.53 27.0 2.96e-01 90.2% 54.4%
1r1uB00 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 47.0 4.55e-01 100.0% 91.4%
1wa8A00 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.52 35.0 3.36e-01 92.7% 58.6%
2kp8A00 1.20.5.170 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.52 34.0 3.59e-01 93.9% 76.4%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4930318 101.1.4.3 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 0.72 40.0 3.42e-01 90.2% 35.4%
4096162 103.2.1.2 ↗ alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone 0.67 46.0 4.26e-01 70.7% 59.0%
4647187 3826.1.1.0 ↗ alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.66 37.0 3.63e-01 87.8% 50.0%
4600617 101.1.2.25 ↗ alpha arrays › HTH › HTH › winged helix domain › FUR 0.66 44.0 3.52e-01 82.9% 37.3%
3873692 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.64 39.0 4.67e-01 92.7% 92.7%
3936163 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.63 44.0 4.91e-01 95.1% 90.8%
3229118 5001.1.1.41 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srw 0.62 36.0 2.55e-01 90.2% 19.2%
3626861 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.61 33.0 2.36e-01 80.5% 16.5%
4559316 101.1.2.352 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc5 0.60 40.0 4.32e-01 97.6% 80.0%
3250201 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.60 40.0 4.47e-01 93.9% 87.7%
3922168 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.60 41.0 4.37e-01 93.9% 81.4%
4000709 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.57 43.0 4.59e-01 98.8% 91.4%
3512341 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.57 43.0 4.59e-01 98.8% 92.9%
3518933 101.1.1.21 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_Tc5 0.56 39.0 4.32e-01 97.6% 90.8%
3509156 101.1.2.352 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc5 0.56 42.0 4.50e-01 98.8% 92.9%
5075901 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.55 30.0 3.50e-01 87.8% 76.4%
4941556 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 49.0 4.47e-01 95.1% 87.5%
3544646 101.1.2.352 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc5 0.55 41.0 4.45e-01 98.8% 92.9%
3993206 101.1.2.352 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_Tnp_Tc5 0.55 41.0 4.43e-01 96.3% 92.9%
3798173 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 41.0 4.36e-01 96.3% 92.9%
2629279 7049.1.1.1 ↗ alpha complex topology › sulfur-binding domain (SBD) of ScoMcrA › sulfur-binding domain (SBD) of ScoMcrA › sulfur-binding domain (SBD) of ScoMcrA › DNA-SBD_ScoMcrA 0.54 49.0 3.85e-01 100.0% 74.6%
4022846 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 47.0 3.50e-01 100.0% 57.7%
3933511 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 40.0 2.67e-01 81.7% 67.6%
3449330 101.1.2.271 ↗ alpha arrays › HTH › HTH › winged helix domain › B-block_TFIIIC 0.53 30.0 2.81e-01 96.3% 42.9%
3691125 186.1.1.0 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.52 39.0 3.28e-01 98.8% 48.1%
3806936 7579.1.1.14 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_3 0.52 44.0 3.00e-01 100.0% 87.0%
3730379 109.4.1.1255 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N, Cnd1 0.52 39.0 2.54e-01 81.7% 56.2%
4991404 101.1.2.895 ↗ alpha arrays › HTH › HTH › winged helix domain › DUF2250 0.51 35.0 3.62e-01 72.0% 72.5%
3718412 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 38.0 2.56e-01 79.3% 30.2%
3419052 263.1.1.1 ↗ a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.51 31.0 3.42e-01 90.2% 76.9%
3686904 2486.1.1.3 ↗ a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Carboxyl_trans 0.51 38.0 2.94e-01 80.5% 83.1%
3812232 101.21.1.1 ↗ alpha arrays › HTH › HTH domain in DNA topoisomerase IV alpha subunit › HTH domain in DNA topoisomerase IV alpha subunit › TP6A_N 0.51 43.0 3.64e-01 92.7% 92.6%