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OM416780.1__ULF50193.1__PSCSP2_00030__00030

Bact-Vir

OM416780.1__ULF50193.1__PSCSP2_00030__00030

Identity

Accession:
OM416780 ↗
Kingdom:
phage

Quality

60.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Prochlorococcus_phage_P-SCSP2

TaxID: 2914506

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 460-553
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sxjE03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.66 40.0 3.98e-01 72.3% 57.7%
2pbiA02 1.10.1240.60 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › 0.63 44.0 4.36e-01 84.0% 68.3%
4m0mA03 1.20.1270.430 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.59 31.0 3.39e-01 91.5% 60.8%
1l8dA00 1.10.287.510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.58 35.0 3.46e-01 76.6% 55.3%
2cz2A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.57 39.0 3.54e-01 90.4% 51.6%
1li5A02 1.20.120.640 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.57 36.0 3.80e-01 97.9% 70.1%
2n5fA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.55 41.0 3.79e-01 79.8% 90.2%
3nbiA01 1.10.8.1020 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › RecQ-mediated genome instability protein 1, N-terminal domain 0.55 29.0 3.54e-01 97.9% 82.8%
2r4gA02 1.10.10.1970 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › TERT catalytic subunit-like 0.54 31.0 3.65e-01 70.2% 81.2%
2a6hF01 1.20.120.1810 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.54 43.0 3.58e-01 90.4% 66.7%
2fp1B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.53 44.0 3.71e-01 91.5% 79.9%
3llkA02 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.52 40.0 3.57e-01 86.2% 97.9%
2zj2A03 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 0.51 40.0 4.20e-01 87.2% 95.2%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3738995 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.62 35.0 4.04e-01 78.7% 78.5%
4577554 101.11.1.1 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase 0.61 44.0 4.44e-01 75.5% 80.0%
3480129 6092.1.1.1 ↗ alpha bundles › Helical extension domain in Regulator of G-protein signaling 9 › Helical extension domain in Regulator of G-protein signaling 9 › Helical extension domain in Regulator of G-protein signaling 9 › RGS_DHEX 0.60 45.0 4.58e-01 88.3% 80.0%
3457119 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.59 32.0 3.92e-01 96.8% 83.3%
3794203 101.11.1.0 ↗ alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 0.56 39.0 4.14e-01 72.3% 89.4%
3937183 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.56 44.0 3.86e-01 85.1% 95.2%
4194412 1128.1.1.1 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR 0.54 35.0 3.32e-01 96.8% 54.5%
4142309 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.54 36.0 3.05e-01 85.1% 40.6%
3515077 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 42.0 3.42e-01 88.3% 63.5%
3280587 1075.4.1.0 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold 0.50 42.0 2.89e-01 91.5% 93.2%
D2 high residues 834-1035
PDB
D3 medium residues 124-192
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1eq1A00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.63 53.0 4.09e-01 97.1% 86.1%
1rp3G02 1.20.140.160 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › PhyR, sigma-like (SL) domain 0.62 53.0 4.25e-01 97.1% 62.7%
4hluD00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 54.0 3.73e-01 100.0% 28.6%
1rp5A03 3.30.70.2110 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 52.0 4.87e-01 100.0% 88.9%
3r31A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.60 50.0 3.53e-01 98.6% 75.1%
2p9xA00 1.10.1200.200 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Protein of unknown function DUF3227 0.60 42.0 3.82e-01 75.4% 99.0%
3pfyA02 6.10.20.180 Special › Helix non-globular › Arc Repressor Mutant, subunit A › 0.59 34.0 3.71e-01 100.0% 68.4%
3qnmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.59 42.0 3.96e-01 78.3% 92.2%
3wa8B00 1.10.520.40 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 1 › CRISPR-associated protein Cse2 0.58 44.0 3.31e-01 81.2% 85.1%
1rc2A00 1.20.1080.10 Mainly Alpha › Up-down Bundle › Glycerol uptake facilitator protein › Glycerol uptake facilitator protein. 0.56 47.0 3.41e-01 100.0% 69.7%
2r4fA03 3.30.70.420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hydroxymethylglutaryl-CoA reductase, class I/II, NAD/NADP-binding domain 0.56 47.0 4.02e-01 97.1% 72.6%
1irlA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 38.0 3.22e-01 98.6% 39.8%
4egwA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.54 38.0 3.24e-01 75.4% 70.6%
1dc1A02 1.10.238.90 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Restriction endonuclease BsobI, helical domain 0.54 38.0 3.56e-01 75.4% 98.9%
2eqoA01 1.10.418.50 Mainly Alpha › Orthogonal Bundle › Actin-binding Protein, T-fimbrin; domain 1 › Microtubule-binding protein MIP-T3 0.54 43.0 3.66e-01 94.2% 65.6%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.54 46.0 3.93e-01 97.1% 70.7%
5l3wA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.53 39.0 3.68e-01 92.8% 64.3%
2l2dA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.53 35.0 3.47e-01 100.0% 64.4%
3hdiA02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.53 42.0 3.16e-01 94.2% 84.3%
3o60A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 35.0 2.63e-01 71.0% 70.3%
3amjB01 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.51 38.0 2.75e-01 81.2% 27.3%
3cucA00 1.10.3290.10 Mainly Alpha › Orthogonal Bundle › Fic-like fold › Fido-like domain 0.51 44.0 3.02e-01 100.0% 38.2%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3971074 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.64 56.0 3.92e-01 100.0% 46.4%
3959257 2007.1.19.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › FabD/lysophospholipase-like › Acyl_transf_1 0.59 51.0 4.08e-01 100.0% 47.6%
3980119 101.1.4.3 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 0.59 46.0 4.59e-01 98.6% 84.3%
3422310 150.1.1.87 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Erg28 0.58 51.0 4.16e-01 100.0% 60.4%
3792012 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 37.0 3.46e-01 76.8% 51.1%
5029465 3457.1.1.1 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.55 49.0 3.73e-01 100.0% 82.4%
3164824 309.1.1.4 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16_C 0.54 46.0 3.49e-01 100.0% 54.1%
3218671 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 0.54 45.0 3.05e-01 100.0% 85.2%
3564576 106.1.1.8 ↗ alpha arrays › Globin-like › Globin-like › Globin-like › HisK-N-like 0.53 40.0 3.26e-01 87.0% 69.3%
5074722 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.52 45.0 4.00e-01 100.0% 73.3%
4947230 4952.1.1.1 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › Lyase_1 0.52 45.0 3.95e-01 98.6% 72.4%
5054410 102.3.1.0 ↗ alpha arrays › HhH/H2TH › eIF2alpha middle domain › eIF2alpha middle domain 0.52 36.0 3.50e-01 75.4% 97.6%
3291081 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 0.52 45.0 3.28e-01 100.0% 39.0%
3335328 103.4.1.0 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.51 45.0 3.97e-01 97.1% 71.0%
4291782 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.51 44.0 3.85e-01 100.0% 69.1%
3349480 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.51 45.0 4.10e-01 97.1% 78.9%
3365581 4952.1.1.1 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › Lyase_1 0.51 44.0 3.77e-01 98.6% 65.2%
3606724 309.1.1.1 ↗ a+b two layers › LuxS, MPP, ThrRS/AlaRS common domain › LuxS, MPP, ThrRS/AlaRS common domain › LuxS/MPP-like metallohydrolase › Peptidase_M16 0.51 42.0 3.07e-01 100.0% 71.9%
4073103 4952.1.1.1 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › Lyase_1 0.50 43.0 3.71e-01 98.6% 65.2%
4459277 4952.1.1.0 ↗ alpha arrays › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like › L-aspartase N-terminal domain-like 0.50 43.0 3.90e-01 98.6% 76.8%
3274973 524.1.1.1 ↗ alpha arrays › Ypt/Rab-GAP domain of gyp1p-like › Ypt/Rab-GAP domain of gyp1p › Ypt/Rab-GAP domain of gyp1p › RabGAP-TBC 0.50 40.0 2.90e-01 100.0% 29.5%
4973147 103.4.1.30 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › PF28863 0.50 44.0 3.94e-01 97.1% 84.2%
D4 medium residues 612-690
PDB
D5 medium residues 691-737_779-832
PDB
D6 medium residues 1068-1174
PDB
D7 medium residues 1175-1261
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jgdB02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.58 47.0 3.21e-01 89.7% 82.6%
3igzB01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.51 44.0 3.12e-01 97.7% 79.7%
2ft0A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 34.0 2.57e-01 70.1% 67.1%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5082603 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.57 39.0 2.76e-01 70.1% 43.8%
3625285 11.1.1.8 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Na_K-ATPase 0.54 42.0 3.14e-01 85.1% 93.4%
3708592 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 41.0 3.91e-01 88.5% 90.5%
D8 medium residues 1436-1596
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3vr4B04 1.10.1140.10 Mainly Alpha › Orthogonal Bundle › Bovine Mitochondrial F1-ATPase, ATP Synthase Beta Chain; Chain D, domain3 › Bovine Mitochondrial F1-atpase; Atp Synthase Beta Chain; Chain D, domain 3 0.52 29.0 3.04e-01 77.0% 56.3%
4bemJ00 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.51 38.0 3.68e-01 77.6% 79.0%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4139130 161.1.1.1 ↗ alpha complex topology › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › Helical scaffold and wing domains of SecA › SecA_SW 0.54 38.0 3.45e-01 73.3% 79.1%