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NC_031944.1__YP_009325002.1__BOW92_gp012__00012

Bact-Vir

NC_031944.1__YP_009325002.1__BOW92_gp012__00012

Identity

Accession:
NC_031944 ↗
Kingdom:
phage

Quality

59.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Sokavirus› Synechococcus_phage_S-WAM1

TaxID: 1815521

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 21-108
PDB
D2 high residues 303-349
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4fvmA06 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.87 63.0 6.31e-01 85.1% 75.0%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.82 64.0 6.64e-01 87.2% 88.6%
2xgsB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.80 53.0 4.52e-01 70.2% 43.8%
1dpsA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.79 61.0 4.12e-01 85.1% 24.5%
3cqcB01 1.20.58.1380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 63.0 5.08e-01 97.9% 46.7%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.76 58.0 5.17e-01 87.2% 60.3%
2cwyA00 1.10.3450.10 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like 0.75 60.0 4.82e-01 97.9% 45.2%
2vgxB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.75 66.0 4.59e-01 97.9% 48.3%
5m72A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.74 55.0 3.82e-01 97.9% 25.3%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.67 49.0 4.74e-01 85.1% 94.8%
3pe0A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 54.0 4.38e-01 100.0% 79.2%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 55.0 4.38e-01 100.0% 80.2%
2dpmA02 1.10.1020.10 Mainly Alpha › Orthogonal Bundle › Adenine-specific Methyltransferase; domain 2 › Adenine-specific Methyltransferase, Domain 2 0.65 51.0 4.08e-01 100.0% 41.7%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 50.0 3.92e-01 100.0% 37.8%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 45.0 4.11e-01 85.1% 79.5%
3kuqA00 1.10.555.10 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase; Chain A › Rho GTPase activation protein 0.62 53.0 3.57e-01 100.0% 65.1%
4j0eA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.57 46.0 3.13e-01 97.9% 35.1%
3k2nA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.57 44.0 3.18e-01 100.0% 86.4%
4ldpA01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.51 42.0 2.83e-01 100.0% 48.1%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3215346 397.7.1.0 ↗ few secondary structure elements › Toxic hairpin › Ribosome-inactivating protein luffin P1 › Ribosome-inactivating protein luffin P1 0.82 65.0 6.39e-01 85.1% 88.0%
4214499 605.1.1.1 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.80 63.0 5.45e-01 85.1% 72.9%
3389783 5030.1.1.0 ↗ extended segments › Photosystem II reaction center protein L, PsbL › Photosystem II reaction center protein L, PsbL › Photosystem II reaction center protein L, PsbL 0.78 61.0 4.64e-01 85.1% 38.1%
5032045 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.70 60.0 4.73e-01 97.9% 62.0%
3351227 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.70 63.0 3.70e-01 100.0% 87.4%
3194777 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.67 50.0 3.81e-01 85.1% 33.3%
3269593 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.63 51.0 4.47e-01 100.0% 57.5%
3613914 3922.1.1.0 ↗ alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 0.61 44.0 3.95e-01 85.1% 53.3%
4373815 1008.1.1.96 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › Spore_III_AF 0.59 44.0 4.08e-01 87.2% 63.1%
3261605 198.1.1.2 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_2,SapB_1 0.57 47.0 4.12e-01 100.0% 58.7%
3811710 2004.1.1.51 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Sulfotransfer_1 0.55 46.0 2.86e-01 100.0% 61.6%
3552432 4207.1.2.0 ↗ alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › MED7 hinge region 0.54 38.0 3.43e-01 80.9% 56.0%
D3 high residues 485-642
PDB
Domain cluster: rep: NC_041875.1__YP_009594310.1__FDG92_gp21__00021__D5-180
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01510.31 best Amidase_2 27.7 4.20e-06 74.1% 90.7%
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yb0B00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.78 64.0 6.45e-01 100.0% 84.3%
1aroL00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.77 61.0 6.34e-01 97.5% 87.2%
3rdrA00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.76 61.0 6.22e-01 98.1% 85.0%
6su5A01 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.74 59.0 6.03e-01 99.4% 84.8%
5xz3B00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.73 61.0 6.03e-01 97.5% 81.5%
4ivvA00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.73 66.0 6.39e-01 100.0% 86.8%
4olsA00 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.71 68.0 6.38e-01 100.0% 87.6%
4pu7A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.60 20.0 3.00e-01 82.3% 64.8%
1aa1B02 3.20.20.110 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Ribulose bisphosphate carboxylase, large subunit, C-terminal domain 0.57 35.0 2.81e-01 98.1% 30.5%
1u6zA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.56 34.0 3.88e-01 98.7% 80.0%
1ug3A02 1.25.40.180 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.54 37.0 4.08e-01 89.2% 87.5%
2w31A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.50 39.0 4.06e-01 97.5% 85.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2845647 285.1.1.1 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › Amidase_2 0.79 62.0 6.31e-01 99.4% 83.0%
1900462 285.1.1.1 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › Amidase_2 0.77 61.0 6.34e-01 97.5% 87.2%
3587007 285.1.1.1 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › Amidase_2 0.75 67.0 6.44e-01 100.0% 83.1%
4650125 285.1.1.1 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › Amidase_2 0.74 67.0 6.42e-01 100.0% 84.6%
3400014 285.1.1.1 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › Amidase_2 0.73 56.0 5.65e-01 96.8% 78.1%
1914461 285.1.1.0 ↗ a+b three layers › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like › N-acetylmuramoyl-L-alanine amidase-like 0.73 66.0 6.37e-01 100.0% 86.8%
4514592 101.1.1.63 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_28 0.58 23.0 2.90e-01 100.0% 57.8%
4681848 7529.1.1.3 ↗ a/b three-layered sandwiches › Macro domain-like › Macro domain-like › Macro domain-like › Peptidase_M17_N 0.57 44.0 4.23e-01 100.0% 70.3%
5045808 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.55 44.0 3.45e-01 84.2% 72.1%
3111894 2002.1.1.1 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › RuBisCO_large 0.53 34.0 2.71e-01 96.8% 30.8%
5040171 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.53 42.0 3.39e-01 84.2% 65.5%
3415904 592.1.1.0 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain 0.52 27.0 3.31e-01 98.1% 80.0%
3484616 109.42.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › E3 ubiquitin-protein ligase SHPRH first helical domain › E3 ubiquitin-protein ligase SHPRH first helical domain › SHPRH_helical-1st 0.51 29.0 3.04e-01 94.3% 57.9%
D4 high residues 733-889
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dqaA00 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.77 59.0 6.58e-01 99.4% 100.0%
4dq5B00 1.10.530.50 Mainly Alpha › Orthogonal Bundle › Lysozyme › Peptidase U40 0.77 63.0 6.27e-01 96.8% 83.7%
4c5fA02 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.74 69.0 6.80e-01 100.0% 92.9%
4hjzA00 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.73 69.0 6.50e-01 100.0% 85.2%
6cfcA01 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.73 62.0 6.22e-01 98.1% 87.6%
3bkhA02 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.71 66.0 6.31e-01 100.0% 89.6%
1zp2A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.63 35.0 4.00e-01 98.7% 73.2%
2ikbC00 1.20.141.10 Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 0.57 50.0 5.00e-01 93.6% 95.7%
D5 medium residues 149-265
PDB
D6 medium residues 405-464
PDB