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NC_041976.1__YP_009606464.1__FDI01_gp037__00037

Bact-Vir

NC_041976.1__YP_009606464.1__FDI01_gp037__00037

Identity

Accession:
NC_041976 ↗
Kingdom:
phage

Quality

95.1 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 4-89
PDB
Domain cluster: representative
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 42.0 5.04e-01 80.2% 82.5%
3fbzA01 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.69 47.0 4.50e-01 82.6% 59.8%
6xpdA01 1.20.1510.10 Mainly Alpha › Up-down Bundle › Alpha-lytic protease prodomain-like › Cation efflux protein transmembrane domain 0.68 51.0 3.91e-01 81.4% 38.6%
2cwoA01 1.20.58.1200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RNA silencing suppressor P21, N-terminal domain 0.67 42.0 4.54e-01 82.6% 73.0%
5ts9B00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.66 55.0 4.41e-01 91.9% 47.8%
2wauA01 1.20.1310.20 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Duffy-antigen binding domain 0.65 53.0 4.33e-01 88.4% 72.3%
4kn7D01 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.65 46.0 3.98e-01 74.4% 48.1%
2dg7A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.64 51.0 3.93e-01 86.0% 44.6%
2ddmB00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.63 46.0 3.22e-01 76.7% 85.2%
2w2dD01 1.20.1120.10 Mainly Alpha › Up-down Bundle › "Clostridium botulinum neurotoxin B, ""coiled-coil"" domain" › "Clostridium botulinum neurotoxin b, ""coiled-coil"" domain" 0.63 56.0 3.61e-01 100.0% 46.2%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.62 50.0 3.91e-01 87.2% 46.9%
3nxcA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.61 49.0 3.95e-01 88.4% 50.3%
5uh5D02 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.61 44.0 3.84e-01 76.7% 76.8%
3qwuA03 3.30.70.2160 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 46.0 3.96e-01 90.7% 50.4%
5xtck00 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.61 47.0 4.51e-01 82.6% 77.3%
3mesA02 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.61 45.0 3.22e-01 81.4% 48.8%
3rlbA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.60 51.0 4.12e-01 95.3% 83.0%
5hn9C00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.60 52.0 3.54e-01 97.7% 68.0%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.60 44.0 4.39e-01 80.2% 74.7%
4x28C03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.60 41.0 3.45e-01 76.7% 42.7%
7zmgL01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 46.0 4.81e-01 83.7% 92.5%
3on4D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 47.0 3.75e-01 87.2% 49.7%
1u8bA02 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.58 34.0 3.83e-01 82.6% 78.7%
3o60A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 45.0 3.54e-01 83.7% 87.4%
1sgmA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 46.0 3.59e-01 86.0% 50.0%
7d1tA01 1.20.85.10 Mainly Alpha › Up-down Bundle › Photosynthetic Reaction Center, subunit M; domain 1 › Photosystem II protein D1-like 0.55 44.0 3.49e-01 87.2% 84.6%
5jajA03 1.20.1320.30 Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › 0.55 37.0 3.37e-01 86.0% 50.9%
2x0qA04 1.10.510.40 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › 0.55 43.0 3.44e-01 87.2% 64.9%
2w02B01 1.10.150.640 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › AcsD, thumb domain, helical bundle 0.55 38.0 4.03e-01 83.7% 85.1%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.55 40.0 3.94e-01 82.6% 71.1%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.54 36.0 4.03e-01 79.1% 88.1%
3cx3B01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.54 44.0 3.70e-01 90.7% 92.2%
3qqaA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 43.0 3.69e-01 88.4% 59.6%
1xx7A00 1.10.3210.10 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 0.53 45.0 3.61e-01 93.0% 47.7%
3eslA01 1.20.58.2070 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 35.0 3.73e-01 77.9% 78.7%
2yfaA02 1.20.1440.210 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.53 39.0 3.57e-01 79.1% 86.2%
5u9nB00 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.53 42.0 3.89e-01 91.9% 85.8%
4errB00 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 36.0 3.72e-01 86.0% 78.3%
3ismC01 1.25.40.240 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ku, C-terminal domain 0.50 39.0 3.32e-01 86.0% 76.6%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3743133 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.88 80.0 6.42e-01 96.5% 94.2%
3375753 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.85 75.0 5.72e-01 95.3% 93.6%
4025314 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.83 70.0 5.66e-01 89.5% 94.8%
3328315 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.83 69.0 5.57e-01 88.4% 94.8%
5016694 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.83 66.0 5.37e-01 83.7% 86.7%
4994774 7064.1.1.0 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 0.83 67.0 5.59e-01 86.0% 95.8%
3704777 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.82 72.0 5.79e-01 95.3% 96.9%
3971686 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.81 64.0 5.39e-01 83.7% 95.7%
4943027 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.81 66.0 5.36e-01 87.2% 95.5%
4926879 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.81 67.0 5.46e-01 88.4% 98.0%
3989507 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.80 65.0 5.63e-01 84.9% 61.6%
5022668 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.80 64.0 5.36e-01 84.9% 97.1%
5011858 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.79 64.0 5.28e-01 84.9% 95.9%
5001242 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.79 65.0 5.44e-01 88.4% 95.2%
4978128 7064.1.1.0 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 0.79 64.0 5.14e-01 86.0% 88.7%
5056837 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.79 64.0 4.80e-01 86.0% 86.9%
5014612 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.79 68.0 5.48e-01 93.0% 91.2%
5010238 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.78 69.0 5.55e-01 95.3% 91.8%
4973788 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.78 64.0 5.34e-01 88.4% 95.9%
4964919 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.78 59.0 4.55e-01 80.2% 90.2%
3640674 148.1.1.43 alpha arrays › Histone-like › Histone-related › Histone › PF30969 0.77 63.0 5.65e-01 88.4% 66.7%
4991095 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.76 66.0 5.42e-01 95.3% 96.8%
5049467 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.76 59.0 4.77e-01 82.6% 89.4%
5076294 604.39.1.0 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters 0.76 63.0 4.82e-01 89.5% 83.7%
5043560 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.76 56.0 4.80e-01 77.9% 95.6%
4957344 3896.1.2.0 alpha duplicates or obligate multimers › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-DAG synthetase-related › Intramembrane CDP-archaeol synthase 0.76 58.0 4.65e-01 82.6% 47.1%
5044488 7064.1.1.0 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 0.76 59.0 4.74e-01 83.7% 87.9%
3274209 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.75 65.0 5.22e-01 95.3% 94.5%
4956867 7064.1.1.0 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 0.74 59.0 5.00e-01 86.0% 95.7%
4236667 3615.1.1.0 alpha bundles › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain › Bacterial dynamin-like protein helical domain 0.73 53.0 3.73e-01 75.6% 25.9%
5060609 632.8.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 0.72 52.0 5.54e-01 75.6% 92.0%
5057355 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.70 58.0 4.82e-01 89.5% 95.9%
4016179 371.1.1.0 few secondary structure elements › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 0.70 53.0 4.69e-01 86.0% 56.0%
3989298 601.19.1.0 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein 0.70 61.0 4.92e-01 97.7% 55.2%
3513623 106.1.1.1 alpha arrays › Globin-like › Globin-like › Globin-like › Globin 0.68 57.0 4.59e-01 90.7% 92.7%
3798462 106.1.1.0 alpha arrays › Globin-like › Globin-like › Globin-like 0.68 61.0 4.82e-01 98.8% 90.3%
4033222 604.39.1.6 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › QueT 0.68 56.0 4.70e-01 91.9% 80.0%
3655748 601.1.2.118 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › CASP_dom 0.67 59.0 4.98e-01 100.0% 81.8%
3655454 181.1.1.19 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › CPP1-like 0.65 52.0 4.77e-01 89.5% 71.7%
3235045 106.1.1.1 alpha arrays › Globin-like › Globin-like › Globin-like › Globin 0.64 52.0 4.33e-01 89.5% 93.8%
3317233 3567.1.1.74 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › DUF716 0.64 47.0 3.38e-01 75.6% 41.4%
3985321 3579.1.1.29 extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › ThrE_2 0.64 55.0 4.66e-01 100.0% 57.9%
3578718 101.1.6.0 alpha arrays › HTH › HTH › TrpR 0.64 47.0 4.55e-01 89.5% 70.5%
3632302 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.62 47.0 4.91e-01 82.6% 92.5%
3618428 106.1.1.1 alpha arrays › Globin-like › Globin-like › Globin-like › Globin 0.61 52.0 4.13e-01 93.0% 86.3%
3682991 3291.1.1.111 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › BPS1 0.61 50.0 4.12e-01 88.4% 58.1%
3697869 608.1.1.0 alpha arrays › AhpD-like › AhpD-like › AhpD-like 0.61 46.0 3.25e-01 84.9% 25.6%
3223457 101.1.2.661 alpha arrays › HTH › HTH › winged helix domain › HTH_9, POLR3C_WHD 0.61 43.0 3.00e-01 73.3% 37.5%
4189329 6026.1.1.36 alpha duplicates or obligate multimers › cwf21 domain › cwf21 domain › cwf21 domain › AlaE 0.60 49.0 4.41e-01 94.2% 70.0%
3386014 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.59 42.0 2.87e-01 76.7% 21.0%
3445635 3718.1.1.23 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › ALMT 0.57 43.0 3.98e-01 81.4% 68.7%
3950339 191.1.1.0 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.56 44.0 3.41e-01 84.9% 45.6%
4963078 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.55 46.0 4.45e-01 89.5% 87.4%
5050647 5065.1.1.3 alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › BPD_transp_2 0.54 47.0 3.33e-01 97.7% 83.3%