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NC_021529.2__YP_008125427.2__VPFG_00279__00093

Bact-Vir

NC_021529.2__YP_008125427.2__VPFG_00279__00093

Identity

Accession:
NC_021529 ↗
Kingdom:
phage

Quality

83.7 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 3-57
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.76 41.0 3.86e-01 100.0% 43.3%
3t5tB01 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.72 50.0 3.17e-01 74.5% 43.9%
3k4iA01 3.50.30.40 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › Ribonuclease E inhibitor RraA/RraA-like 0.63 54.0 3.93e-01 100.0% 91.9%
1y14D02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 49.0 4.42e-01 100.0% 100.0%
1okjA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 35.0 2.92e-01 98.2% 34.7%
4bt2A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.57 46.0 3.71e-01 90.9% 81.6%
1ujcA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.57 46.0 3.46e-01 96.4% 94.2%
1fjmB00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.57 45.0 3.02e-01 100.0% 82.4%
1ehiA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.56 47.0 3.60e-01 100.0% 66.0%
1xv2C01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.56 41.0 3.40e-01 83.6% 51.4%
2uz8A01 3.40.30.90 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.54 38.0 3.88e-01 80.0% 100.0%
3qf7A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 39.0 2.59e-01 83.6% 37.4%
2rqxA00 2.40.50.650 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 43.0 3.85e-01 96.4% 69.1%
3oulA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 40.0 2.68e-01 85.5% 99.5%
2xjpA01 2.60.120.1560 Mainly Beta › Sandwich › Jelly Rolls › 0.51 36.0 2.50e-01 78.2% 81.2%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4854841 7512.1.1.6 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.71 50.0 3.48e-01 74.5% 68.9%
3420136 2487.1.1.2 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PEP-utilizers 0.71 60.0 4.53e-01 100.0% 88.3%
4946104 2487.1.1.25 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PEP-utilizers_C 0.69 58.0 4.32e-01 100.0% 91.6%
4032923 2003.1.2.24 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.69 39.0 2.36e-01 100.0% 8.7%
4524149 247.1.1.30 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Anti-Pycsar_Apyc1 0.67 57.0 3.54e-01 96.4% 100.0%
4985658 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.66 45.0 4.04e-01 74.5% 75.3%
3691749 2487.1.1.8 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › RraA-like 0.64 54.0 3.64e-01 100.0% 76.6%
4026328 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 45.0 3.96e-01 89.1% 67.8%
3595340 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 45.0 3.79e-01 100.0% 94.8%
5082349 12.6.1.1 beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Glyco_hydro_65C 0.56 45.0 3.91e-01 100.0% 57.6%
4352333 3264.1.1.0 0.56 39.0 2.92e-01 74.5% 55.5%
4113044 2007.1.2.4 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › ANF_receptor 0.56 37.0 2.45e-01 70.9% 88.8%
3704306 3006.1.1.5 a+b two layers › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › PF30285 0.56 42.0 3.94e-01 85.5% 94.3%
3810129 376.1.2.2 few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › C1_2 0.56 41.0 3.93e-01 100.0% 69.2%
6447 243.8.1.2 a+b two layers › Cystatin-like › Uracil-DNA glycosylase inhibitor protein › Uracil-DNA glycosylase inhibitor protein › UDI 0.55 38.0 3.43e-01 100.0% 49.4%
4663567 207.6.1.12 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Serralysin-like metalloprotease-C › Serralysin-like metalloprotease-C › Ice_nucleation 0.55 47.0 2.68e-01 98.2% 11.4%
4863908 4011.1.1.0 beta barrels › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins 0.55 37.0 3.46e-01 70.9% 94.6%
3406047 2.1.1.81 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rrp44_S1 0.54 42.0 3.67e-01 98.2% 88.6%
3261590 2.1.1.81 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rrp44_S1 0.53 42.0 3.64e-01 98.2% 94.0%
4371579 1.1.1.1 beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp 0.53 37.0 2.34e-01 76.4% 30.6%
3722404 10.22.1.1 beta sandwiches › jelly-roll › DUF1989 family protein › DUF1989 family protein › DUF1989 0.52 41.0 2.68e-01 90.9% 58.5%
3187287 1.1.1.1 beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp 0.52 36.0 2.27e-01 76.4% 28.8%
4034176 2007.6.1.4 a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › SIS 0.51 41.0 2.99e-01 92.7% 83.3%
4563194 274.1.1.40 a+b two layers › Pili subunits › Pili subunits › Pili subunits › 17kDa_Anti_2 0.51 35.0 3.14e-01 78.2% 84.0%
4662134 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.51 35.0 2.96e-01 78.2% 71.3%
D2 high residues 62-133
PDB
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3iq1B00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.64 49.0 3.81e-01 83.3% 85.5%
3p4tA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.62 53.0 4.29e-01 100.0% 80.7%
5m72A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 43.0 3.39e-01 81.9% 34.7%
5tqbB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 44.0 2.87e-01 81.9% 16.6%
2qkwA00 1.20.1270.140 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AvrPto 0.61 42.0 3.80e-01 72.2% 86.1%
1wfdA00 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 40.0 3.77e-01 70.8% 74.2%
1ivhA03 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 50.0 4.18e-01 100.0% 85.1%
3m9vA03 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 50.0 3.98e-01 100.0% 89.8%
1rx0A03 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 49.0 3.94e-01 100.0% 70.3%
5af7B03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 48.0 3.95e-01 100.0% 77.0%
4wqoD00 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.57 37.0 2.98e-01 100.0% 34.0%
1yjgA00 1.20.120.240 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Lipoprotein, type 6 0.56 43.0 3.40e-01 83.3% 57.3%
4s3mB02 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 0.56 49.0 4.37e-01 100.0% 81.1%
2jifA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.56 48.0 3.83e-01 100.0% 68.8%
3dcfA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 42.0 3.45e-01 83.3% 88.0%
2qqyA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.55 47.0 3.91e-01 100.0% 58.7%
2yukA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.55 41.0 3.85e-01 80.6% 65.6%
2m7bA00 1.10.10.1920 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 40.0 3.93e-01 83.3% 74.0%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.54 37.0 3.28e-01 72.2% 74.1%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.54 46.0 3.71e-01 100.0% 57.2%
1q0gA00 1.20.120.400 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nickel-containing superoxide dismutase 0.53 39.0 3.40e-01 79.2% 70.9%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.53 46.0 4.17e-01 100.0% 79.6%
4p3fA00 1.10.3450.40 Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › Signal recognition particle, SRP68 subunit, RNA-binding domain 0.53 45.0 3.38e-01 97.2% 73.1%
1n81A00 1.10.3030.10 Mainly Alpha › Orthogonal Bundle › Gametocyte protein Pfg27 › Gametocyte protein Pfg27 0.53 38.0 2.80e-01 75.0% 30.6%
2xvtC00 1.10.150.510 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Receptor activity modifying family 0.52 37.0 3.67e-01 76.4% 77.2%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.52 44.0 3.63e-01 95.8% 85.5%
6fndA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 47.0 3.47e-01 100.0% 59.1%
1un8A02 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.52 44.0 3.33e-01 98.6% 66.1%
4dyqA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.52 40.0 3.62e-01 87.5% 83.5%
2ra1A01 1.20.58.790 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 40.0 3.63e-01 84.7% 94.9%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 42.0 3.75e-01 91.7% 95.1%
6ig5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.50 43.0 3.56e-01 98.6% 92.0%
2d3dA00 1.10.150.50 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Transcription Factor, Ets-1 0.50 42.0 4.10e-01 100.0% 83.1%
2vxxA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 41.0 3.31e-01 100.0% 53.5%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3707107 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.80 57.0 3.58e-01 73.6% 34.8%
3606136 109.4.1.194 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_10 0.80 55.0 3.52e-01 72.2% 35.6%
3764760 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 50.0 4.37e-01 77.8% 89.5%
3521129 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.67 52.0 3.71e-01 83.3% 82.4%
3187874 109.4.1.235 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SRP68 0.67 52.0 3.07e-01 83.3% 30.0%
3457190 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.61 54.0 4.32e-01 100.0% 77.2%
2036593 109.4.1.1264 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8, TPR_16 0.60 44.0 2.86e-01 81.9% 16.7%
3809170 3826.1.1.92 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › WAV3_C 0.60 46.0 4.61e-01 88.9% 80.0%
5081839 109.10.1.1 alpha superhelices › Repetitive alpha hairpins › Translin › Translin › Translin 0.60 46.0 3.34e-01 83.3% 36.4%
3177256 109.4.1.1764 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF28917 0.59 53.0 3.95e-01 100.0% 41.7%
5074775 4156.1.1.6 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Helicase_dom4_arc 0.58 51.0 4.34e-01 98.6% 77.1%
3289405 191.1.1.44 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_43 0.57 44.0 3.61e-01 81.9% 91.5%
3457403 633.4.1.1 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.57 48.0 4.10e-01 100.0% 87.7%
3508752 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 48.0 4.09e-01 93.1% 100.0%
3372974 3684.1.1.2 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › BPS1 0.56 37.0 2.57e-01 73.6% 18.5%
3819516 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.56 47.0 4.52e-01 100.0% 88.2%
4236831 604.6.1.50 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › DUF2524 0.55 44.0 4.30e-01 86.1% 98.8%
4949961 109.7.1.0 alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.55 43.0 4.38e-01 81.9% 85.7%
4979217 4156.1.1.0 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like 0.55 48.0 4.17e-01 95.8% 82.7%
3636839 226.1.1.1 a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.54 44.0 3.37e-01 90.3% 40.0%
1144728 604.12.1.2 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 0.54 41.0 3.83e-01 83.3% 76.6%
3576131 190.1.1.0 alpha arrays › HMG-box-like › HMG-box › HMG-box 0.54 40.0 3.97e-01 80.6% 74.7%
4982222 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.53 40.0 3.82e-01 81.9% 83.5%
5078792 3684.1.1.0 alpha complex topology › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like › PSPTO4464 C-terminal domain-like 0.53 39.0 3.42e-01 79.2% 67.3%
5073374 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.52 38.0 3.54e-01 76.4% 82.2%
3591288 604.12.1.8 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › KATNA1_MIT 0.52 44.0 3.77e-01 100.0% 63.2%
3235514 601.33.1.10 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain › DUF19 0.52 39.0 4.02e-01 84.7% 98.6%
3215729 193.1.1.27 alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like › CCDC93_N 0.51 45.0 3.91e-01 98.6% 81.8%
3309012 604.3.1.1 alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › BAG 0.51 41.0 3.52e-01 87.5% 70.4%
3701020 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.51 43.0 4.17e-01 93.1% 88.7%
3606842 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.50 37.0 3.35e-01 77.8% 92.0%
4235470 140.1.1.5 alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon_1 0.50 39.0 3.09e-01 88.9% 65.3%