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NC_021788.1__YP_008240631.1__Phi4-1_gp043__00043

Bact-Vir

NC_021788.1__YP_008240631.1__Phi4-1_gp043__00043

Identity

Accession:
NC_021788 ↗
Kingdom:
phage

Quality

75.7 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 3-43_198-282
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2rkkA01 1.25.40.270 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Vacuolar protein sorting-associated protein vta1 0.70 36.0 3.31e-01 80.2% 40.4%
2v0oB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.69 48.0 3.66e-01 70.6% 74.9%
3syvA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.65 47.0 3.76e-01 74.6% 81.2%
3dyjA02 1.20.1420.10 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Talin, central domain 0.65 45.0 4.24e-01 70.6% 96.7%
4fzsA00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.63 46.0 3.84e-01 74.6% 91.4%
2lqgA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.63 44.0 4.34e-01 72.2% 67.4%
7zmgL01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.62 39.0 4.70e-01 73.0% 100.0%
7aalA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.61 44.0 3.45e-01 74.6% 81.2%
3rkoG00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 42.0 4.62e-01 79.4% 88.0%
2v6yA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.61 35.0 4.39e-01 72.2% 94.7%
8e9gK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 41.0 4.77e-01 79.4% 95.6%
8b70A01 1.20.1740.10 Mainly Alpha › Up-down Bundle › Amino acid/polyamine transporter I › Amino acid/polyamine transporter I 0.60 49.0 3.40e-01 88.1% 93.5%
1xx7A00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.60 46.0 4.12e-01 80.2% 89.5%
4hkrA00 1.20.140.140 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Calcium release-activated calcium channel protein Orai 0.60 52.0 4.74e-01 94.4% 84.8%
4w8pA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.59 41.0 4.10e-01 70.6% 68.5%
7p3rA01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.59 43.0 3.22e-01 76.2% 79.4%
5ziyA01 1.20.1330.10 Mainly Alpha › Up-down Bundle › f41 fragment of flagellin, N-terminal domain › f41 fragment of flagellin, N-terminal domain 0.59 42.0 3.67e-01 74.6% 61.9%
1r2jA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.58 47.0 4.52e-01 86.5% 87.5%
7sgrA02 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.57 45.0 3.35e-01 83.3% 58.1%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 39.0 4.33e-01 77.8% 92.8%
1nfvA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.55 38.0 3.48e-01 70.6% 80.5%
1jadA00 1.20.1230.10 Mainly Alpha › Up-down Bundle › Phospholipase C Beta; Chain: A › Phospholipase C beta, distal C-terminal domain 0.55 46.0 3.72e-01 90.5% 93.8%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 40.0 3.30e-01 77.0% 79.3%
2pfdA03 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.53 45.0 3.82e-01 90.5% 97.5%
1ciiA01 1.20.250.10 Mainly Alpha › Up-down Bundle › Colicin Ia; domain 1 › Colicin Ia, domain 1 0.53 42.0 3.12e-01 84.9% 82.0%
8etcb01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.53 38.0 3.68e-01 73.8% 74.7%
2e87A01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.53 39.0 3.66e-01 77.0% 69.4%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 43.0 3.99e-01 87.3% 89.9%
2fbnA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 34.0 3.21e-01 73.8% 53.6%
5kbwB00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.52 43.0 3.91e-01 93.7% 66.1%
5ffdA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 41.0 3.98e-01 84.1% 91.2%
1zs3A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.52 40.0 3.69e-01 84.1% 75.4%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.52 39.0 3.86e-01 79.4% 97.7%
2fx0A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 32.0 3.16e-01 72.2% 56.8%
2r6tB01 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.51 38.0 3.52e-01 78.6% 97.0%
6tqfA01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.51 45.0 3.18e-01 96.8% 84.9%
2ozbE02 1.10.246.90 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Nop domain 0.51 34.0 3.64e-01 73.8% 79.4%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 34.0 4.04e-01 73.0% 100.0%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4826576 150.1.1.5 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › DUF305 0.69 45.0 5.29e-01 72.2% 96.5%
4654652 633.21.1.23 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CD20 0.69 50.0 4.80e-01 76.2% 66.4%
4398872 174.1.1.43 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › CD20 0.68 52.0 4.74e-01 78.6% 65.6%
3532924 174.1.1.43 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › CD20 0.68 51.0 4.54e-01 77.0% 61.2%
5045209 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 0.67 45.0 3.73e-01 71.4% 40.0%
4192664 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.67 49.0 3.63e-01 77.8% 30.6%
3577239 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.66 48.0 3.83e-01 74.6% 74.6%
3873872 633.21.1.23 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CD20 0.66 49.0 4.44e-01 77.8% 65.9%
2878134 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.66 47.0 4.51e-01 73.0% 69.3%
3899721 174.1.1.43 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › CD20 0.65 50.0 4.53e-01 79.4% 61.2%
4111212 622.4.1.30 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › ETR1_N 0.65 46.0 5.11e-01 74.6% 91.0%
5034628 632.12.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Vng1086c-like › Vng1086c-like › UPF0058 0.65 44.0 4.99e-01 79.4% 89.8%
3719374 3843.1.1.11 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › DGF-1_C 0.64 43.0 3.68e-01 71.4% 43.0%
3750176 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.64 51.0 4.04e-01 84.1% 72.9%
3542652 633.23.1.34 alpha bundles › Bromodomain-like › Claudin › Claudin › CD20 0.64 49.0 4.41e-01 79.4% 63.5%
3692540 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.64 48.0 4.03e-01 79.4% 69.8%
3718561 3843.1.1.11 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › DGF-1_C 0.64 43.0 3.23e-01 72.2% 28.7%
3714117 3562.1.1.31 alpha bundles › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › Calcium release-activated calcium channel protein 1 › DGF-1_C 0.64 43.0 3.22e-01 73.0% 28.2%
4501827 3843.1.1.1 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › Oxidored_q2 0.62 41.0 4.47e-01 75.4% 81.0%
4956384 3755.4.1.0 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.61 45.0 3.91e-01 77.0% 91.3%
4032384 604.3.1.0 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain 0.61 36.0 4.44e-01 74.6% 91.3%
2492494 601.33.1.1 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › CHAD 0.59 41.0 4.65e-01 93.7% 94.7%
3088275 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.59 40.0 4.55e-01 80.2% 92.6%
4973614 5069.1.3.26 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › DUF1622 0.59 41.0 4.39e-01 71.4% 89.1%
3518306 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 0.59 46.0 3.40e-01 83.3% 64.5%
3413674 3755.3.1.123 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Tektin 0.59 42.0 3.48e-01 73.8% 86.5%
4405286 604.39.1.12 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › VTT_dom 0.58 46.0 3.89e-01 82.5% 78.0%
2755018 3843.1.1.1 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › Oxidored_q2 0.58 40.0 4.44e-01 77.8% 89.8%
3580189 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 43.0 3.70e-01 88.9% 51.6%
4018124 4177.1.1.2 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.57 40.0 3.24e-01 71.4% 74.2%
3824606 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.56 39.0 3.51e-01 70.6% 53.1%
3240929 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.56 47.0 3.91e-01 89.7% 87.9%
3400367 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 34.0 3.25e-01 75.4% 52.7%
4100508 3843.1.1.4 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › PhaG_MnhG_YufB 0.55 43.0 4.44e-01 83.3% 86.7%
4488200 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.55 44.0 4.74e-01 84.1% 96.3%
3939 150.1.1.1 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.55 38.0 3.47e-01 70.6% 78.7%
4960309 5058.1.1.101 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › DUF1622 0.54 39.0 4.11e-01 73.8% 91.8%
5077923 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.54 41.0 3.59e-01 79.4% 78.9%
3227991 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.54 41.0 3.68e-01 79.4% 69.1%
4022968 5058.1.1.0 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.54 45.0 3.77e-01 90.5% 69.1%
3686012 3722.1.1.0 alpha bundles › Protein regulator of cytokinesis 1 (PRC1) rod domain › Protein regulator of cytokinesis 1 (PRC1) rod domain › Protein regulator of cytokinesis 1 (PRC1) rod domain 0.53 41.0 3.43e-01 79.4% 76.6%
3955621 603.5.1.33 alpha bundles › STAT-like › FlgN-like › FlgN-like › SLAC1 0.53 43.0 4.06e-01 87.3% 95.5%
3471104 3718.1.1.0 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT 0.52 40.0 3.56e-01 81.7% 56.1%
3477079 3832.1.1.1 alpha bundles › Tumor necrosis factor alpha-induced protein 8-like protein 2 › Tumor necrosis factor alpha-induced protein 8-like protein 2 › Tumor necrosis factor alpha-induced protein 8-like protein 2 › DUF758 0.52 42.0 3.82e-01 87.3% 86.1%
3596158 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 44.0 4.14e-01 90.5% 83.9%
3882743 3718.1.1.21 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › Ax_dynein_light 0.51 36.0 3.82e-01 72.2% 83.6%
3593555 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 40.0 3.53e-01 89.7% 55.8%
3603360 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.51 40.0 4.24e-01 83.3% 100.0%
5057341 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 41.0 3.29e-01 88.1% 52.0%
D2 high residues 48-194
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5j3tA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 31.0 3.37e-01 98.6% 63.5%
3mjgX02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 27.0 3.37e-01 98.6% 80.5%
4oi4C01 2.60.120.1030 Mainly Beta › Sandwich › Jelly Rolls › Clp1, DNA binding domain 0.51 26.0 3.37e-01 100.0% 84.5%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3966724 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.51 33.0 3.92e-01 97.3% 100.0%