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NC_048765.1__YP_009845728.1__HWC21_gp072__00072

Bact-Vir

NC_048765.1__YP_009845728.1__HWC21_gp072__00072

Identity

Accession:
NC_048765 ↗
Kingdom:
phage

Quality

74.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Vapseptimavirus› Vibrio_phage_VAP7

TaxID: 2584487

Cluster

Singleton — not in a non-trivial cluster

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 35-94
PDB
Domain cluster: representative
CATH (40)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1w0bA01 1.20.58.420 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › AHSP 0.76 52.0 4.48e-01 71.7% 50.0%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.76 52.0 4.98e-01 71.7% 67.6%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.72 60.0 5.87e-01 93.3% 97.0%
2i7nA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.72 54.0 3.97e-01 80.0% 54.8%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.72 49.0 4.39e-01 71.7% 54.1%
8e9gJ01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.72 49.0 3.56e-01 71.7% 28.7%
7craA02 1.20.58.1480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 61.0 5.33e-01 96.7% 95.7%
4kjmA02 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 0.71 54.0 5.60e-01 86.7% 90.9%
1r4gA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.71 54.0 5.63e-01 90.0% 96.2%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.70 59.0 4.81e-01 96.7% 66.9%
3h36A00 1.10.10.400 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain 0.69 49.0 4.51e-01 75.0% 61.5%
1oksA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.69 54.0 5.62e-01 90.0% 100.0%
3gcgB00 1.10.4120.20 Mainly Alpha › Orthogonal Bundle › SopE-like GEF fold › 0.68 50.0 3.78e-01 83.3% 31.6%
2ougA00 3.30.70.940 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › NusG, N-terminal domain 0.68 57.0 4.37e-01 95.0% 78.7%
1t5oA01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.67 53.0 4.10e-01 90.0% 90.8%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.67 56.0 5.23e-01 96.7% 97.4%
1cf7B00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 46.0 4.24e-01 75.0% 62.2%
3qf7A02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 45.0 4.42e-01 71.7% 66.7%
3bvxA02 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.66 57.0 4.75e-01 100.0% 79.3%
2juaA00 1.20.1480.30 Mainly Alpha › Up-down Bundle › hypothetical protein mp506/mpn330, domain 1 › Designed four-helix bundle protein 0.65 43.0 3.71e-01 71.7% 41.2%
1dqeA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.65 53.0 4.08e-01 90.0% 56.9%
1lkvX02 1.10.220.30 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Flagellar motor switch protein FliG, alpha-alpha superhelical domain 0.64 49.0 3.83e-01 83.3% 65.2%
3s6jE02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.64 46.0 4.39e-01 75.0% 100.0%
3bulA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.63 44.0 3.96e-01 73.3% 52.9%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.62 43.0 4.29e-01 71.7% 73.8%
6lumD01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.61 55.0 4.28e-01 100.0% 90.4%
3s0aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.59 48.0 3.95e-01 93.3% 60.5%
4pfyA03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.59 49.0 3.31e-01 93.3% 28.2%
4yzgA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.59 46.0 3.02e-01 91.7% 95.6%
3l4aA00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.58 46.0 3.86e-01 93.3% 62.8%
1qrvA00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.58 41.0 3.82e-01 73.3% 98.6%
1gt0D00 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.56 37.0 3.49e-01 73.3% 51.9%
3hr0B01 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.56 42.0 3.78e-01 78.3% 68.4%
2yjkC00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 48.0 3.63e-01 100.0% 89.2%
1v9mA02 1.20.1690.10 Mainly Alpha › Up-down Bundle › V-type ATP synthase subunit C fold › V-type ATP synthase subunit C domain 0.54 44.0 3.78e-01 93.3% 82.2%
1rv2D04 1.10.287.690 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain 0.54 36.0 3.42e-01 96.7% 60.0%
1ak0A00 1.10.575.10 Mainly Alpha › Orthogonal Bundle › P1 Nuclease › P1 Nuclease 0.53 43.0 2.90e-01 95.0% 44.3%
4o8sA02 1.20.58.1790 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › JHP933, helical tail domain 0.52 47.0 3.86e-01 98.3% 78.5%
7zxkC01 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.52 46.0 3.47e-01 100.0% 76.0%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.51 45.0 3.98e-01 98.3% 89.4%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4276746 192.1.1.40 ↗ alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › VMA21 0.79 55.0 5.25e-01 71.7% 69.1%
3798232 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.79 54.0 4.74e-01 71.7% 50.0%
4991136 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.73 59.0 5.96e-01 88.3% 93.3%
3521931 192.29.1.118 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Tcp11 0.72 63.0 4.93e-01 96.7% 84.0%
3610184 375.1.9.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase 0.71 48.0 3.88e-01 71.7% 38.3%
3864432 632.11.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › DOCK_N 0.71 57.0 4.95e-01 86.7% 84.4%
3961399 632.3.1.6 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain › OmdA 0.69 52.0 5.37e-01 85.0% 100.0%
4070046 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.67 50.0 3.84e-01 80.0% 85.2%
5062158 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.66 56.0 5.23e-01 96.7% 97.3%
5060848 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.65 50.0 5.05e-01 88.3% 100.0%
4464029 5000.6.1.1 ↗ alpha arrays › Toxins' membrane translocation domains › Tethering factor for nuclear proteasome cut8 › Tethering factor for nuclear proteasome cut8 › Cut8 0.65 45.0 3.04e-01 71.7% 42.8%
4938673 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.64 52.0 5.16e-01 93.3% 96.9%
3206303 3722.1.1.1 ↗ 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 › MAP65_ASE1 0.64 52.0 3.76e-01 98.3% 32.0%
3705824 614.1.1.25 ↗ alpha duplicates or obligate multimers › L27 domain › L27 domain › L27 domain › DUF7623 0.64 55.0 4.55e-01 98.3% 56.4%
5066226 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.64 54.0 5.34e-01 98.3% 90.8%
3431874 190.1.1.1 ↗ alpha arrays › HMG-box-like › HMG-box › HMG-box › HMG_box 0.64 42.0 3.78e-01 81.7% 48.2%
3963928 514.1.1.1 ↗ alpha bundles › YutG-like › YutG-like › YutG-like › PgpA 0.63 55.0 4.11e-01 100.0% 51.6%
5051430 632.1.1.2 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › BE_C 0.63 55.0 4.42e-01 100.0% 72.5%
3672772 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 42.0 4.02e-01 70.0% 70.0%
4956051 7523.1.1.3 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › SBP_bac_5 0.61 52.0 3.43e-01 93.3% 25.8%
5066415 4323.1.1.0 ↗ alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C 0.60 48.0 3.62e-01 95.0% 33.9%
3598977 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.60 43.0 3.86e-01 76.7% 63.5%
1890010 1106.1.1.1 ↗ alpha arrays › RDS3 complex subunit 10 › RDS3 complex subunit 10 › RDS3 complex subunit 10 › SF3b10 0.59 34.0 3.06e-01 76.7% 41.7%
4887352 4246.1.1.4 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_2, RNA_pol_Rpb1_1 0.59 45.0 2.87e-01 83.3% 66.6%
3653335 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.59 46.0 3.51e-01 88.3% 91.0%
4071670 3361.1.1.0 ↗ alpha bundles › C-terminal Pdr1-activating domain of J-protein Zuo1 › C-terminal Pdr1-activating domain of J-protein Zuo1 › C-terminal Pdr1-activating domain of J-protein Zuo1 0.58 45.0 4.54e-01 86.7% 98.3%
5040119 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.57 41.0 4.16e-01 75.0% 83.3%
3988260 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.55 45.0 2.96e-01 100.0% 32.6%
4784164 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.55 40.0 3.83e-01 76.7% 84.3%
4011442 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.53 43.0 2.96e-01 100.0% 45.7%
4547686 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.53 42.0 4.10e-01 93.3% 92.9%
4994686 2004.1.3.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III › POR 0.53 43.0 3.12e-01 95.0% 75.9%
3976109 632.7.1.61 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › BREX_BrxC_helical 0.50 39.0 3.47e-01 96.7% 97.1%