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NC_070860.1__YP_010658689.1__PP754_gp002__00002

Bact-Vir

NC_070860.1__YP_010658689.1__PP754_gp002__00002

Identity

Accession:
NC_070860 ↗
Kingdom:
phage

Quality

75.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Cbunavirus› Pectobacterium_phage_Possum

TaxID: 2686301

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 63-125
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
8eg0B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.70 51.0 3.19e-01 77.8% 30.3%
2zgoA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.69 50.0 3.69e-01 77.8% 52.7%
3hfqA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.68 51.0 3.23e-01 82.5% 32.9%
3a9gA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.68 50.0 3.12e-01 77.8% 38.2%
2r0hA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.67 49.0 3.72e-01 81.0% 55.0%
1wmiA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.66 48.0 4.30e-01 77.8% 89.8%
2kheA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.65 47.0 4.25e-01 77.8% 87.6%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 50.0 3.95e-01 85.7% 47.1%
2p4oA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.65 47.0 3.04e-01 77.8% 35.6%
3fo5B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.65 53.0 3.77e-01 100.0% 82.8%
4jr7A02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 46.0 3.77e-01 77.8% 99.2%
2ymsA00 2.40.128.630 Mainly Beta › Beta Barrel › Lipocalin › 0.63 47.0 3.81e-01 81.0% 62.1%
3m2oA01 3.30.720.120 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.63 37.0 4.00e-01 90.5% 69.8%
2w18A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 45.0 2.90e-01 77.8% 27.8%
4fr9A00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.61 49.0 3.86e-01 90.5% 88.7%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.60 45.0 4.21e-01 81.0% 73.8%
6hoxA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.60 45.0 3.12e-01 84.1% 38.8%
1k32A01 2.120.10.60 Mainly Beta › 6 Propeller › Neuraminidase › Tricorn protease N-terminal domain 0.59 43.0 2.84e-01 77.8% 34.9%
5g56A03 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.59 49.0 3.91e-01 92.1% 87.1%
2af5A01 2.40.128.160 Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) 0.58 39.0 4.17e-01 71.4% 92.6%
1rypK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.58 42.0 3.04e-01 79.4% 49.5%
3tdgA01 3.10.450.520 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 45.0 4.52e-01 88.9% 89.4%
3vsfA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.58 49.0 3.82e-01 95.2% 86.4%
4zgfA00 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.57 44.0 3.53e-01 88.9% 85.1%
3ffzA04 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.57 48.0 3.54e-01 96.8% 77.0%
6l4qB01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 43.0 3.45e-01 84.1% 54.1%
1jlxA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.56 47.0 3.70e-01 95.2% 85.7%
4rs6A01 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.56 46.0 3.80e-01 93.7% 67.8%
1vw5A00 3.30.70.1420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Structure from the mobile metagenome of cole harbour salt marsh: integron cassette protein hfx_cass1 0.56 42.0 3.25e-01 84.1% 53.0%
1ospO02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.55 42.0 3.30e-01 84.1% 55.5%
3p8aA02 2.60.40.4320 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 38.0 3.43e-01 73.0% 51.1%
1wczA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.55 39.0 3.28e-01 76.2% 68.7%
3gvpA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 47.0 3.54e-01 100.0% 45.3%
1nr4C00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 38.0 3.83e-01 77.8% 87.9%
4govA01 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.53 42.0 3.49e-01 95.2% 80.9%
1clwA00 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.52 40.0 2.33e-01 82.5% 14.2%
3doaA01 2.30.310.10 Mainly Beta › Roll › ibrinogen binding protein from staphylococcus aureus fold › ibrinogen binding protein from staphylococcus aureus domain 0.52 43.0 3.34e-01 96.8% 69.9%
2gsbA01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.51 35.0 3.31e-01 74.6% 85.7%
4ld1A00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.51 37.0 2.75e-01 77.8% 30.6%
3i9v700 3.30.920.80 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › NADH-quinone oxidoreductase, subunit 15 0.51 41.0 3.30e-01 90.5% 94.5%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5000990 241.1.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone 0.77 59.0 4.39e-01 82.5% 68.4%
3684031 7512.1.1.1 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDPGT 0.72 52.0 3.44e-01 77.8% 26.4%
3692299 5.1.3.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Arylesterase 0.71 55.0 3.32e-01 84.1% 24.3%
5003245 243.8.1.0 ↗ a+b two layers › Cystatin-like › Uracil-DNA glycosylase inhibitor protein › Uracil-DNA glycosylase inhibitor protein 0.70 48.0 4.67e-01 71.4% 74.3%
4960615 5.1.3.277 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF7133 0.68 50.0 3.18e-01 79.4% 24.2%
4025955 5.1.4.271 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, PF30361 0.68 48.0 2.89e-01 74.6% 18.8%
3716034 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.67 46.0 2.94e-01 73.0% 28.8%
3077250 234.3.1.0 ↗ a+b two layers › Microbial ribonucleases-like › Colicin D nuclease domain › Colicin D nuclease domain 0.66 46.0 4.22e-01 76.2% 53.4%
3575072 5.1.3.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Ldl_recept_b 0.66 45.0 2.94e-01 71.4% 16.6%
3267885 223.2.1.1 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.65 55.0 4.46e-01 100.0% 84.4%
4965851 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.65 41.0 4.40e-01 71.4% 74.5%
3944566 809.1.1.10 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP › EndoU_bacteria 0.65 46.0 4.68e-01 74.6% 78.3%
4950477 809.1.1.0 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP 0.64 46.0 4.41e-01 77.8% 78.7%
None — 0.64 56.0 3.16e-01 100.0% 31.7%
3939638 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.64 44.0 3.64e-01 73.0% 47.4%
4078090 5.1.4.169 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RSE1_2nd 0.63 47.0 2.97e-01 82.5% 26.1%
5048686 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 54.0 4.40e-01 100.0% 74.4%
3243074 389.1.1.0 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.63 45.0 4.55e-01 77.8% 84.6%
5038672 243.3.1.78 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF7351 0.62 43.0 4.01e-01 73.0% 88.7%
1501273 3943.1.1.3 ↗ beta sandwiches › Flagellar hook-associated protein 1 beta-sandwich domains › Flagellar hook-associated protein 1 beta-sandwich domains › Flagellar hook-associated protein 1 beta-sandwich domains › flgK_1st_1 0.62 42.0 3.81e-01 73.0% 50.6%
3749834 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.61 41.0 4.34e-01 71.4% 78.2%
4951170 809.1.1.0 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP 0.61 44.0 4.27e-01 77.8% 87.1%
3943609 5.1.3.23 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › SGL 0.60 46.0 3.09e-01 87.3% 31.0%
3262446 331.4.1.1 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › KA1 0.60 44.0 3.86e-01 77.8% 69.9%
3305609 330.7.1.0 ↗ a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain 0.60 42.0 3.97e-01 76.2% 77.5%
4976589 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.60 43.0 3.76e-01 96.8% 50.5%
3995911 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.59 43.0 3.83e-01 77.8% 67.0%
3960462 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.59 44.0 2.99e-01 82.5% 67.1%
4951171 809.1.1.0 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP 0.58 42.0 4.08e-01 77.8% 84.3%
5041229 375.13.1.0 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain 0.57 41.0 4.18e-01 74.6% 98.3%
3579622 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.57 42.0 3.51e-01 77.8% 61.8%
4460735 3264.1.1.0 ↗ 0.57 41.0 3.17e-01 77.8% 32.9%
5047088 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.57 48.0 3.34e-01 95.2% 34.1%
4971345 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 45.0 4.01e-01 93.7% 77.0%
4291626 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.56 38.0 3.39e-01 71.4% 82.1%
3496279 206.1.2.4 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › Ins_P5_2-kin 0.56 44.0 2.70e-01 88.9% 91.7%
4992030 632.1.1.40 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DUF3536 0.56 47.0 3.22e-01 96.8% 27.8%
3597793 5094.1.1.0 ↗ a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like 0.56 36.0 2.88e-01 79.4% 31.1%
1422950 324.1.2.0 ↗ a+b two layers › OsmC-like › OsmC-like 0.55 42.0 3.26e-01 85.7% 52.9%
3194733 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 39.0 3.27e-01 100.0% 40.8%
4003932 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.55 44.0 3.70e-01 93.7% 78.3%
4932368 2005.1.1.17 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1f 0.54 37.0 2.48e-01 71.4% 55.5%
3230503 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.54 45.0 3.28e-01 96.8% 37.9%
3787893 206.1.1.70 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, ABC1 0.54 43.0 2.82e-01 93.7% 55.6%
4978135 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.53 41.0 3.28e-01 88.9% 49.0%
3199320 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.53 41.0 3.32e-01 82.5% 80.9%
4938262 3435.1.1.10 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › PF27341 0.53 45.0 3.08e-01 95.2% 84.4%
5048260 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.53 41.0 3.24e-01 90.5% 48.4%
5040009 5.1.3.22 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › GSDH 0.52 38.0 2.52e-01 85.7% 62.0%
6646 241.2.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › NADH_Oxid_Nqo15 0.51 42.0 3.33e-01 90.5% 94.5%
4857588 219.1.1.6 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.51 41.0 2.94e-01 100.0% 88.2%
4970868 69.1.1.0 ↗ beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint 0.50 43.0 3.42e-01 95.2% 48.8%
D2 medium residues 1-51
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1v29B02 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.63 50.0 4.09e-01 88.2% 94.8%
2x1wD00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.53 37.0 3.17e-01 76.5% 80.8%
3u4qA06 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 41.0 2.88e-01 100.0% 49.5%
2r5rA00 3.10.270.10 Alpha Beta › Roll › Urate Oxidase › Urate Oxidase; 0.51 41.0 2.69e-01 92.2% 50.8%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5072764 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 47.0 4.81e-01 94.1% 98.0%
3390587 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 45.0 4.40e-01 100.0% 98.3%
3488036 2004.1.1.176 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Beta-Casp 0.55 39.0 2.62e-01 84.3% 17.1%
3360403 4.26.1.0 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 0.54 42.0 4.24e-01 90.2% 96.0%
3931788 375.1.1.89 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-LITAF-like 0.53 40.0 3.63e-01 90.2% 88.6%
4186468 371.1.1.2 ↗ few secondary structure elements › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 › Phospholipase A2, PLA2 › Phospholip_A2_2 0.53 38.0 2.98e-01 82.4% 48.5%
4137758 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.51 37.0 3.80e-01 98.0% 82.0%
3188399 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.50 41.0 3.04e-01 100.0% 66.9%