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NC_007710.1__YP_453644.1__OP2_ORF27__00027

Bact-Vir

NC_007710.1__YP_453644.1__OP2_ORF27__00027

Identity

Accession:
NC_007710 ↗
Kingdom:
phage

Quality

82.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Tsukubavirus› Xanthomonas_phage_OP2

TaxID: 331627

Cluster

View cluster (15 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 medium residues 45-106
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hdeC00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.81 73.0 5.32e-01 100.0% 79.3%
2anvA00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.81 72.0 5.43e-01 100.0% 69.2%
8hp8A01 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.80 71.0 5.28e-01 100.0% 65.4%
6h9dA00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.79 70.0 5.28e-01 100.0% 64.9%
4evxA00 1.10.1740.240 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.75 67.0 5.74e-01 100.0% 66.0%
152lA00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.68 61.0 4.50e-01 100.0% 50.6%
1q45A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.60 47.0 2.90e-01 85.5% 22.5%
2dr1A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 42.0 3.31e-01 79.0% 75.6%
6a6eA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.57 42.0 2.77e-01 79.0% 76.6%
1eluA02 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.55 40.0 2.69e-01 79.0% 76.9%
2m72A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 42.0 3.23e-01 88.7% 77.1%
1zj8A02 3.90.480.10 Alpha Beta › Alpha-Beta Complex › Sulfite Reductase Hemoprotein; domain 2 › Sulfite Reductase Hemoprotein;Domain 2 0.52 37.0 2.81e-01 75.8% 75.0%
4bbyA02 3.30.160.650 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 27.0 3.05e-01 100.0% 65.9%
8gthB01 1.10.760.10 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain 0.51 35.0 3.09e-01 72.6% 53.6%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2771202 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.81 74.0 5.36e-01 100.0% 83.1%
3949298 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.79 71.0 5.06e-01 100.0% 80.6%
3944610 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.78 70.0 5.15e-01 100.0% 81.1%
136932 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.76 68.0 4.96e-01 100.0% 78.8%
3974990 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.75 68.0 5.57e-01 100.0% 58.2%
2439620 1.1.15.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PK beta-barrel domain-like 0.74 66.0 3.93e-01 100.0% 18.5%
2665501 235.1.1.6 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme 0.73 65.0 4.67e-01 100.0% 48.9%
3295061 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.67 46.0 3.77e-01 72.6% 48.3%
3422852 4.1.1.85 ↗ beta barrels › SH3 › SH3 › SH3 › MTR4_beta-barrel 0.60 42.0 3.28e-01 72.6% 76.8%
4022408 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.59 42.0 2.63e-01 75.8% 87.9%
3987428 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.59 42.0 3.56e-01 74.2% 98.0%
1714462 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.58 39.0 3.56e-01 82.3% 50.6%
3685060 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.57 47.0 2.87e-01 90.3% 25.5%
3603146 2008.1.1.95 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DpnII 0.57 47.0 3.12e-01 95.2% 49.8%
4489492 298.1.1.24 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.55 41.0 2.85e-01 83.9% 53.6%
4525882 3747.1.1.3 ↗ a+b two layers › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flagellar hook protein FlgE D0 domain › Flg_bbr_C 0.55 44.0 3.69e-01 87.1% 76.2%
3968284 2007.1.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › DJ-1_PfpI 0.54 39.0 2.88e-01 79.0% 59.5%
4565714 10.12.1.12 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › TauD 0.54 40.0 2.61e-01 79.0% 35.5%
3500612 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 0.53 46.0 2.93e-01 98.4% 77.3%
3903603 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.53 39.0 3.69e-01 80.6% 93.3%
3415237 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 43.0 2.97e-01 90.3% 74.9%
4966853 375.1.1.324 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF1922 0.52 38.0 3.54e-01 79.0% 83.7%
D2 medium residues 107-176
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
152lA00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.80 68.0 5.13e-01 100.0% 39.6%
2pihA00 1.20.1500.10 Mainly Alpha › Up-down Bundle › YheA-like fold › YheA/YmcA-like 0.73 48.0 3.84e-01 100.0% 38.2%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 46.0 4.43e-01 100.0% 61.5%
1m5iA00 1.10.287.450 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.65 43.0 3.71e-01 100.0% 45.7%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.64 53.0 4.66e-01 94.3% 100.0%
1eq1A00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.64 55.0 4.29e-01 100.0% 60.2%
1ldjA02 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.62 48.0 4.02e-01 84.3% 96.7%
4lqkA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.62 44.0 3.66e-01 84.3% 40.9%
6nmnA02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.61 43.0 3.63e-01 75.7% 62.5%
5hayA02 1.25.40.440 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Nucleoporin, helical domain, central subdomain 0.60 42.0 4.14e-01 81.4% 67.1%
3d1uA03 1.20.1270.240 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.59 43.0 3.78e-01 75.7% 53.5%
3a98A02 1.20.1270.350 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Dedicator of cytokinesis N-terminal subdomain 0.58 45.0 4.27e-01 87.1% 100.0%
2kiwA01 1.10.150.130 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain 0.58 51.0 4.80e-01 100.0% 87.2%
1y14A01 1.20.1250.40 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › RNA Polymerase II, Rpb4 subunit 0.57 46.0 3.87e-01 100.0% 50.0%
1td6A01 1.20.1480.10 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › hypothetical protein mp506/mpn330, domain 1 0.57 47.0 4.30e-01 98.6% 72.5%
2mpkA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.57 44.0 4.38e-01 84.3% 94.6%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.57 47.0 4.26e-01 98.6% 74.8%
1mivA02 1.10.110.30 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › 0.57 38.0 3.47e-01 75.7% 51.0%
2i10B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 39.0 3.30e-01 74.3% 96.8%
1wrdA00 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 41.0 3.76e-01 81.4% 80.6%
4q20A01 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.55 38.0 3.68e-01 100.0% 62.2%
3ls1A00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.55 40.0 3.36e-01 80.0% 55.6%
3rguB00 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 0.55 39.0 3.66e-01 75.7% 95.4%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 41.0 3.64e-01 84.3% 93.5%
1wvuA01 1.10.530.10 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.54 47.0 3.74e-01 100.0% 86.5%
6ygiB01 1.10.4090.10 Mainly Alpha › Orthogonal Bundle › Hepatitis B viral capsid (hbcag) fold › Viral capsid, core domain supefamily, Hepatitis B virus 0.53 39.0 3.18e-01 80.0% 78.1%
1mswD04 1.10.287.280 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.53 45.0 4.44e-01 100.0% 94.9%
2odmA00 1.10.287.750 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like 0.53 41.0 3.97e-01 85.7% 86.1%
1vdyA00 1.25.40.90 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.53 37.0 3.16e-01 80.0% 65.7%
2k3oA00 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.52 44.0 3.72e-01 100.0% 74.4%
3mpiA01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.52 39.0 3.37e-01 85.7% 48.8%
2f48A03 1.10.10.480 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Phosphofructokinase; domain 3 0.51 37.0 3.67e-01 82.9% 74.7%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4944710 604.5.1.82 ↗ alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › TrkA_C 0.68 51.0 4.58e-01 78.6% 86.3%
3411860 633.6.1.6 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › ACAD9-ACADV_C 0.62 43.0 3.31e-01 100.0% 33.3%
3347270 3843.1.1.0 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.61 46.0 4.14e-01 85.7% 99.0%
3304001 1075.5.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › MatE 0.60 45.0 3.67e-01 81.4% 60.0%
5071125 632.1.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Alpha-mann_mid 0.60 38.0 3.40e-01 100.0% 43.8%
5050536 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.59 44.0 4.47e-01 81.4% 80.0%
3310299 611.9.1.4 ↗ alpha bundles › N-cbl like › Resistance protein (Rx) N-terminal domain › Resistance protein (Rx) N-terminal domain › Rx_N 0.59 41.0 3.59e-01 74.3% 82.6%
5079638 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.57 40.0 3.66e-01 75.7% 85.0%
3215295 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.57 39.0 3.77e-01 71.4% 97.5%
3242683 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.56 39.0 3.62e-01 72.9% 90.0%
3583953 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.55 41.0 2.91e-01 84.3% 90.7%
3734058 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.54 40.0 3.60e-01 81.4% 76.2%
3584334 604.12.1.56 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › ASTER 0.54 41.0 3.80e-01 81.4% 70.0%
3586442 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.53 41.0 3.58e-01 84.3% 69.1%
3203026 3640.1.1.8 ↗ alpha duplicates or obligate multimers › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Minor ampullate fibroin 1 C-terminal domain › Tri-helical 0.53 42.0 3.92e-01 94.3% 92.6%
3764851 192.8.1.0 ↗ alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.53 39.0 3.61e-01 100.0% 62.2%
3513384 109.4.1.263 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › UVSSA_N 0.52 38.0 3.29e-01 80.0% 86.7%
3848917 3939.1.1.0 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.52 38.0 3.64e-01 100.0% 65.9%
4664977 159.1.2.0 ↗ alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › MazG-related 0.52 40.0 3.60e-01 100.0% 58.7%