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NC_074661.1__YP_010773281.1__QIT82_gp75__00075

Bact-Vir

NC_074661.1__YP_010773281.1__QIT82_gp75__00075

Identity

Accession:
NC_074661 ↗
Kingdom:
phage

Quality

75.1 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 2-49
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1i94H01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.69 47.0 4.06e-01 72.9% 59.0%
3zieD00 3.30.110.150 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › SepF-like protein 0.65 44.0 3.81e-01 72.9% 64.6%
2pytA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.64 52.0 3.98e-01 100.0% 36.7%
2q30A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.64 55.0 4.56e-01 100.0% 54.5%
3qjlA02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 52.0 4.04e-01 100.0% 95.8%
4mt1A07 3.30.70.1440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain 0.62 52.0 4.23e-01 100.0% 82.4%
1s7iA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.60 34.0 2.51e-01 89.6% 19.4%
6m9sD01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 50.0 4.04e-01 100.0% 47.5%
3tqfA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 40.0 2.78e-01 100.0% 20.6%
1qhdA02 1.10.1350.10 Mainly Alpha › Orthogonal Bundle › Viral capsid alpha domain › Viral capsid alpha domain 0.59 46.0 3.14e-01 100.0% 54.2%
4a17E01 3.90.930.12 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › Ribosomal protein L6 0.53 40.0 3.49e-01 91.7% 88.2%
4zxwB01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 40.0 2.91e-01 89.6% 72.1%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 38.0 2.69e-01 85.4% 49.5%
1vziA01 2.20.28.100 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › Desulphoferrodoxin, N-terminal domain 0.52 36.0 3.89e-01 83.3% 97.4%
3liuA01 2.60.40.3160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 41.0 3.28e-01 100.0% 90.7%
8a5eD01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 40.0 3.61e-01 100.0% 92.4%
3ce9A01 3.40.50.1970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.51 40.0 3.02e-01 100.0% 83.9%
3k50A03 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.51 38.0 2.74e-01 89.6% 56.7%
4uyiA00 3.30.710.10 Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A 0.51 40.0 3.08e-01 93.8% 57.5%
3k1lA01 3.30.457.40 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › 0.51 39.0 3.12e-01 89.6% 43.5%
4rckA00 3.40.50.410 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain 0.51 36.0 2.48e-01 79.2% 29.4%
2v4jB03 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 39.0 3.73e-01 100.0% 95.4%
3c4nA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.50 37.0 3.04e-01 97.9% 63.2%
3c5cB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 38.0 2.75e-01 87.5% 83.2%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4932061 4076.4.1.0 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.71 55.0 5.67e-01 97.9% 95.6%
3716713 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 56.0 5.59e-01 100.0% 92.0%
4133267 4076.3.1.3 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.69 56.0 5.45e-01 97.9% 85.5%
4967982 4076.4.1.0 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.69 53.0 5.46e-01 100.0% 100.0%
3977412 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.68 57.0 5.76e-01 100.0% 98.0%
4057802 4076.4.1.0 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.67 52.0 5.34e-01 97.9% 95.6%
4200990 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.67 53.0 5.25e-01 100.0% 88.0%
4939553 4076.4.1.0 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.66 50.0 5.05e-01 100.0% 86.0%
4939413 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.65 53.0 5.34e-01 97.9% 96.0%
4593896 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.65 47.0 4.82e-01 95.8% 91.1%
3600426 4076.3.1.3 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › SLD5_C 0.64 52.0 5.09e-01 100.0% 89.1%
4934987 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.63 48.0 4.90e-01 95.8% 93.3%
3461676 10.32.1.212 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › GUB_WAK_bind 0.61 50.0 3.43e-01 100.0% 46.0%
4982370 4076.4.1.0 a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.58 40.0 4.20e-01 97.9% 92.5%
4936727 304.3.1.4 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › MCR_D 0.58 46.0 3.71e-01 100.0% 77.4%
3877310 2004.1.1.250 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.58 44.0 2.55e-01 87.5% 22.2%
3874464 304.48.1.1 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.56 44.0 2.76e-01 100.0% 55.8%
3280936 7523.1.1.15 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › LysR_substrate 0.55 45.0 3.02e-01 100.0% 42.3%
4603153 2007.1.19.1 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › FabD/lysophospholipase-like › Acyl_transf_1 0.54 44.0 2.77e-01 100.0% 77.7%
3407018 391.1.2.11 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › VWC2L_2nd 0.53 36.0 3.36e-01 81.2% 56.7%
3981696 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 38.0 3.62e-01 87.5% 65.0%
4962604 239.1.1.15 beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › CPxCG_zf 0.52 38.0 3.57e-01 83.3% 98.5%
4457759 327.16.1.3 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Secretin_N 0.52 38.0 3.37e-01 91.7% 90.0%
5052835 205.1.1.21 a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4_16 0.51 38.0 2.57e-01 91.7% 40.4%
3398292 11.1.1.5 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Zona_pellucida 0.51 41.0 2.81e-01 97.9% 60.0%
3625636 2007.1.4.2 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Phosphofructokinase N-terminal domain › DAGK_cat 0.51 37.0 2.72e-01 83.3% 59.4%
5075002 101.1.2.525 alpha arrays › HTH › HTH › winged helix domain › DUF7646 0.51 35.0 3.00e-01 79.2% 49.5%
3613569 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.51 41.0 2.38e-01 100.0% 35.2%
3514086 2004.1.1.19 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.50 39.0 2.73e-01 87.5% 75.1%
4878131 109.4.1.105 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 39.0 2.33e-01 85.4% 41.0%
3795351 2004.1.1.19 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.50 38.0 2.68e-01 87.5% 73.2%
3327661 2007.1.4.1 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Phosphofructokinase N-terminal domain › PFK 0.50 39.0 2.47e-01 95.8% 50.0%
4260211 4967.1.1.6 alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › Intron_maturas2 0.50 38.0 2.97e-01 91.7% 52.7%
D2 high residues 56-126
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.76 53.0 5.18e-01 71.8% 100.0%
7zmgL01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.72 46.0 4.45e-01 83.1% 58.7%
2chnB03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.71 55.0 4.01e-01 81.7% 56.1%
1r9dA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.68 55.0 3.10e-01 88.7% 30.8%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.67 47.0 3.58e-01 71.8% 73.1%
2e9xB02 1.20.58.1020 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 57.0 4.92e-01 97.2% 93.6%
2fonA04 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.64 47.0 3.87e-01 78.9% 89.9%
4ymuD00 1.10.3720.10 Mainly Alpha › Orthogonal Bundle › MetI-like fold › MetI-like 0.63 46.0 3.29e-01 77.5% 76.3%
8b9zK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.63 42.0 3.92e-01 78.9% 53.8%
1yfmA02 1.20.200.10 Mainly Alpha › Up-down Bundle › Fumarase C; Chain A, domain 2 › Fumarase/aspartase (Central domain) 0.61 49.0 3.35e-01 90.1% 75.5%
3purA03 1.20.58.1360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 41.0 3.64e-01 71.8% 83.6%
4akgA08 1.10.472.130 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Dynein motor, AAA2 domain, small subdomain 0.61 49.0 3.78e-01 87.3% 63.5%
7tj9A01 1.20.120.350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels. Chain C 0.59 42.0 3.61e-01 74.6% 59.4%
1o7dC01 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.58 41.0 4.40e-01 74.6% 91.8%
2qbyA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 47.0 3.47e-01 85.9% 42.2%
1f68A00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.58 40.0 3.49e-01 70.4% 80.6%
4g12A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 50.0 4.01e-01 100.0% 96.0%
1kblA05 1.20.80.30 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › 0.57 48.0 4.47e-01 91.5% 79.8%
8etcb01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.56 43.0 3.35e-01 78.9% 48.6%
4wqoD00 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.51 46.0 3.67e-01 98.6% 97.9%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954375 601.7.1.20 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Abi_C 0.80 62.0 5.05e-01 91.5% 47.5%
4192699 603.5.1.1 alpha bundles › STAT-like › FlgN-like › FlgN-like › FlgN 0.80 57.0 4.49e-01 73.2% 81.5%
4989195 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.77 59.0 4.98e-01 85.9% 50.4%
5049791 601.7.1.1 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HepT-like 0.75 57.0 4.47e-01 93.0% 40.7%
3810589 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.73 53.0 3.19e-01 74.6% 17.4%
3546342 133.1.1.5 alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › DH_Alsin 0.73 50.0 3.50e-01 70.4% 30.5%
3710353 148.1.3.12 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_8 0.73 51.0 4.40e-01 73.2% 78.2%
4974358 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.71 50.0 4.38e-01 85.9% 49.5%
3821839 192.8.1.59 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain › ATG14 0.69 52.0 3.45e-01 94.4% 19.7%
3595201 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 59.0 3.70e-01 93.0% 34.2%
5055517 4953.1.1.0 beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.67 48.0 3.85e-01 74.6% 80.7%
3514794 5057.1.1.1 alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb 0.67 51.0 4.23e-01 80.3% 85.0%
3950977 5058.1.1.9 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Colicin_V 0.67 47.0 3.65e-01 74.6% 78.1%
3821192 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.66 46.0 4.34e-01 71.8% 74.1%
4672000 589.1.1.0 alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain 0.66 52.0 3.87e-01 84.5% 73.1%
3704359 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.66 48.0 3.49e-01 76.1% 60.6%
5019279 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.64 46.0 3.04e-01 100.0% 20.4%
5028352 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 0.63 41.0 3.90e-01 84.5% 55.3%
3688463 5054.1.1.0 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.62 54.0 3.67e-01 98.6% 42.3%
4018473 5043.2.1.0 extended segments › Sensor proteins transmembrane domains › NarQ transmembrane domain › NarQ transmembrane domain 0.61 50.0 3.82e-01 85.9% 57.3%
3175095 5050.1.1.4 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Nucleoside_tran 0.61 44.0 3.28e-01 76.1% 53.0%
3431118 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.60 45.0 3.84e-01 78.9% 59.1%
3329872 3409.1.1.3 a+b duplicates or obligate multimers › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › Vacuolar protein sorting-associated protein 30 BARA domain › ATG14 0.59 51.0 3.84e-01 97.2% 39.4%
3289317 191.1.1.41 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › EthR_C 0.58 52.0 4.05e-01 98.6% 92.7%
4932584 2004.1.1.196 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_22 0.58 49.0 3.40e-01 90.1% 33.5%
3490912 109.4.1.469 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › INTS15 0.58 43.0 2.67e-01 78.9% 55.9%
4311479 507.1.1.1 alpha arrays › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB 0.57 50.0 3.73e-01 94.4% 70.3%
5016502 191.1.1.14 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_10 0.53 40.0 3.25e-01 80.3% 76.3%