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SR-VP_0-2_scaffold_141_6063796_prodigal-single.1__X__X__00048

Bact-Vir

SR-VP_0-2_scaffold_141_6063796_prodigal-single.1__X__X__00048

Identity

Kingdom:
phage

Quality

66.4 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 1-67
PDB
D2 high residues 69-125
PDB
Domain cluster: representative
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ydxA02 1.10.287.1120 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Bipartite methylase S protein 0.86 62.0 5.20e-01 75.4% 71.1%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.85 61.0 4.35e-01 75.4% 33.3%
3fxdB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 59.0 5.87e-01 73.7% 81.0%
2b1eA01 1.20.58.1150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 67.0 5.73e-01 87.7% 75.6%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.80 56.0 3.43e-01 73.7% 85.5%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.76 61.0 5.53e-01 86.0% 81.3%
3fxdC00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.76 53.0 5.66e-01 73.7% 84.0%
2ntxA01 1.20.58.2010 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › PRONE domain, subdomain 1 0.76 68.0 4.58e-01 100.0% 73.3%
4gltA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.75 53.0 4.19e-01 75.4% 37.7%
1ezjA01 1.10.287.320 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Viral phosphoprotein oligmorisation site domain 0.75 45.0 4.43e-01 71.9% 56.5%
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.74 64.0 5.68e-01 93.0% 79.2%
5b1aC01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 51.0 4.80e-01 73.7% 79.4%
1dt9A01 3.30.960.10 Alpha Beta › 2-Layer Sandwich › Translation, Eukaryotic Peptide Chain Release Factor Subunit 1; Chain A › eRF1 domain 1 0.71 59.0 4.90e-01 94.7% 56.2%
4iggA01 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.71 51.0 4.87e-01 77.2% 65.7%
3eslA01 1.20.58.2070 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 54.0 4.99e-01 86.0% 77.3%
3rh3A01 1.20.120.930 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Uncharacterised protein PF12889, N-terminal DUF3829 0.68 48.0 3.70e-01 75.4% 98.5%
3akaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.68 47.0 3.41e-01 73.7% 34.6%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.67 57.0 5.56e-01 94.7% 98.4%
2ewfA02 1.20.1270.310 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.67 47.0 4.19e-01 73.7% 54.3%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 47.0 4.61e-01 75.4% 74.2%
4j05A00 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.66 56.0 3.39e-01 100.0% 46.7%
2c42A06 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.66 56.0 3.43e-01 100.0% 44.2%
1rqgA04 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.65 55.0 4.17e-01 100.0% 55.6%
3di2A00 1.20.1250.50 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.65 53.0 4.33e-01 94.7% 67.8%
2wvxA04 1.20.1610.10 Mainly Alpha › Up-down Bundle › Glycosyl hydrolase family fold › alpha-1,2-mannosidases domains 0.65 49.0 3.51e-01 82.5% 33.5%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 49.0 4.05e-01 86.0% 79.5%
2hsnA02 1.20.1050.110 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.65 50.0 4.15e-01 87.7% 72.9%
4l0rB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 44.0 4.12e-01 73.7% 58.9%
1elkA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 52.0 3.89e-01 94.7% 37.3%
7k3zG01 3.50.7.10 Alpha Beta › 3-Layer(bba) Sandwich › GroEL › GroEL 0.63 53.0 3.60e-01 94.7% 52.1%
5xfaA04 1.20.1440.230 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain 0.63 53.0 4.78e-01 100.0% 96.5%
6yttA01 1.10.8.190 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Carbon monoxide dehydrogenase alpha subunit. Chain M, domain 1 0.63 51.0 4.40e-01 96.5% 57.0%
5pg1A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.62 50.0 4.17e-01 98.2% 76.5%
2k8oA00 1.20.5.2120 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.62 41.0 4.10e-01 75.4% 66.7%
5ko4A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.62 51.0 4.40e-01 100.0% 85.1%
2vvwA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.62 53.0 3.99e-01 100.0% 44.7%
3u3iA02 1.20.58.1110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 52.0 4.36e-01 100.0% 68.5%
4uyeA00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.61 50.0 4.16e-01 96.5% 80.7%
6cw0A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.61 49.0 4.22e-01 98.2% 84.6%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.60 46.0 4.26e-01 84.2% 90.5%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.60 49.0 3.81e-01 98.2% 63.2%
3k3uA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.60 49.0 3.82e-01 94.7% 97.8%
1f68A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.59 48.0 4.12e-01 98.2% 83.5%
2vdwG00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 46.0 3.04e-01 98.2% 91.3%
4nooB00 1.10.8.1160 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.55 40.0 3.45e-01 80.7% 68.4%
2d8dB00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.55 47.0 4.15e-01 94.7% 89.2%
1i36A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.54 40.0 3.53e-01 86.0% 96.0%
1u6zA02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.54 45.0 3.22e-01 94.7% 55.9%
3oftA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 44.0 2.77e-01 100.0% 65.4%
3l4aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.51 43.0 3.39e-01 94.7% 63.6%
4m70B00 1.10.246.200 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › WPP domain 0.51 45.0 3.87e-01 100.0% 91.2%
3iieB03 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.51 41.0 3.55e-01 86.0% 78.8%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3271912 5033.1.1.0 ↗ extended segments › Photosystem II reaction center protein M, PsbM › Photosystem II reaction center protein M, PsbM › Photosystem II reaction center protein M, PsbM 0.85 61.0 5.04e-01 75.4% 45.3%
3611163 2004.1.1.480 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21, AAA_29 0.82 59.0 3.42e-01 75.4% 20.7%
3403082 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.81 71.0 4.76e-01 94.7% 54.2%
3879443 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.81 65.0 5.76e-01 86.0% 68.8%
3666826 109.4.1.1245 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_Sec16 0.81 67.0 4.72e-01 89.5% 52.8%
3960783 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 0.81 58.0 5.12e-01 75.4% 72.5%
3235297 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.79 57.0 3.89e-01 75.4% 23.2%
3754401 109.26.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.78 66.0 3.81e-01 93.0% 21.1%
3959888 3922.1.1.159 ↗ 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 › PPE 0.77 55.0 4.38e-01 75.4% 39.1%
3237761 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.77 62.0 5.11e-01 87.7% 81.0%
3960659 150.8.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE › PPE 0.76 54.0 4.21e-01 75.4% 36.7%
2889541 109.26.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.76 65.0 3.96e-01 94.7% 31.0%
3684979 192.3.1.0 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain 0.76 56.0 4.61e-01 77.2% 62.1%
3335074 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.74 65.0 5.01e-01 100.0% 73.8%
3901917 1134.1.1.7 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain › ALA1 0.74 60.0 5.60e-01 89.5% 85.7%
4428204 109.4.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PI3Ka 0.73 68.0 4.44e-01 100.0% 27.4%
3737852 109.22.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Survival of motor neuron protein-interacting protein 1 › Survival of motor neuron protein-interacting protein 1 › SIP1 0.72 62.0 4.19e-01 96.5% 59.5%
4582542 192.11.1.1 ↗ alpha bundles › Long alpha-hairpin › C-terminal UvrC-binding domain of UvrB › C-terminal UvrC-binding domain of UvrB › UVR 0.72 58.0 5.60e-01 87.7% 95.2%
4978572 604.17.1.1 ↗ alpha bundles › Spectrin repeat-like › MTH_863 C-terminal domain-like › MTH_863 C-terminal domain-like › DUF447_C 0.71 60.0 5.64e-01 93.0% 91.3%
3226077 2484.1.1.50 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Dimer_Tnp_hAT 0.71 64.0 3.70e-01 96.5% 35.3%
3492551 109.4.1.628 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sec7-like_HUS 0.71 55.0 3.67e-01 87.7% 39.6%
3332757 109.4.1.1528 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_TEX10 0.70 54.0 3.70e-01 87.7% 25.9%
3996406 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.68 53.0 5.07e-01 89.5% 81.4%
3993713 109.4.1.14 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MyTH4 0.68 57.0 4.02e-01 93.0% 36.6%
3701532 192.3.1.0 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain 0.67 55.0 4.71e-01 98.2% 56.7%
3724595 650.1.1.0 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain 0.67 55.0 5.47e-01 91.2% 96.7%
3170915 604.1.1.225 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › PF29134 0.66 53.0 4.88e-01 94.7% 88.7%
5014267 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.66 45.0 4.32e-01 73.7% 60.0%
3610628 650.1.1.1 ↗ alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ 0.65 53.0 4.98e-01 91.2% 77.1%
3687207 633.4.1.0 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.64 52.0 4.29e-01 98.2% 73.3%
3416911 109.4.1.267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CIP2A_N 0.64 50.0 2.92e-01 91.2% 19.8%
4033427 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.64 55.0 5.20e-01 100.0% 82.9%
4016595 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 0.63 45.0 4.03e-01 75.4% 56.2%
4432932 3615.1.1.10 ↗ alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › TMEM125 0.63 53.0 4.12e-01 98.2% 75.6%
4304666 532.1.1.0 ↗ alpha arrays › Type III secretion system domain-like › Antibiotic binding domain of TipA-like multidrug resistance regulators › Antibiotic binding domain of TipA-like multidrug resistance regulators 0.63 53.0 4.40e-01 94.7% 81.0%
3461932 3922.1.1.189 ↗ 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 › DUF630 0.62 43.0 3.73e-01 73.7% 48.4%
3904779 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 0.62 54.0 4.40e-01 100.0% 65.5%
3926402 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.61 51.0 4.63e-01 98.2% 93.8%
4955796 150.1.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.60 49.0 3.85e-01 93.0% 73.6%
3482900 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.60 41.0 3.70e-01 70.2% 50.0%
3947112 192.8.1.394 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › MscS_porin 0.59 49.0 3.45e-01 100.0% 75.8%
4538372 101.35.1.0 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX 0.55 48.0 4.62e-01 100.0% 93.8%
3285411 1016.1.1.0 ↗ alpha arrays › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 › Dimerization domain in caprin-1 and PAN3 0.53 46.0 3.44e-01 100.0% 86.7%