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NC_055736.1__YP_010093524.1__KNT80_gp81__00081

Bact-Vir

NC_055736.1__YP_010093524.1__KNT80_gp81__00081

Identity

Accession:
NC_055736 ↗
Kingdom:
phage

Quality

65.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Pariacacavirus› Vibrio_phage_1.245.O._10N.261.54.C7

TaxID: 1881236

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 high residues 9-47
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2mq8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.79 53.0 3.76e-01 71.8% 24.1%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 44.0 3.12e-01 97.4% 20.0%
2qm4A01 2.170.210.10 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › DNA double-strand break repair and VJ recombination XRCC4, N-terminal 0.64 45.0 3.08e-01 74.4% 20.3%
4mh4A02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.64 52.0 4.10e-01 100.0% 51.1%
3kvnA02 2.40.128.130 Mainly Beta › Beta Barrel › Lipocalin › Autotransporter beta-domain 0.64 51.0 3.11e-01 100.0% 59.4%
3ks7A02 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.61 47.0 3.14e-01 92.3% 83.2%
2dchX02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.60 45.0 3.35e-01 87.2% 73.0%
2bhgA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 41.0 3.36e-01 82.1% 73.9%
4npjB01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.59 42.0 3.03e-01 84.6% 86.4%
4inaA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.58 44.0 2.95e-01 94.9% 59.9%
2jqjA01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.58 45.0 3.33e-01 97.4% 51.5%
6wulB01 2.40.160.50 Mainly Beta › Beta Barrel › Porin › membrane protein fhac: a member of the omp85/tpsb transporter family 0.58 45.0 2.71e-01 100.0% 78.9%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 46.0 3.97e-01 100.0% 95.8%
4c89C00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 44.0 2.62e-01 94.9% 50.4%
2b0aA00 3.50.30.50 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › Putative cyclase 0.56 47.0 3.10e-01 100.0% 25.3%
1oi2A02 3.30.1180.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › Dihydroxyacetone kinase; domain 2 0.55 39.0 2.74e-01 84.6% 40.7%
3i3lA02 3.30.390.160 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.55 40.0 3.10e-01 97.4% 84.8%
2sliA03 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.55 40.0 3.04e-01 76.9% 67.0%
4kh9B02 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.55 40.0 3.16e-01 97.4% 81.4%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 39.0 2.54e-01 100.0% 19.2%
4kt5C00 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 0.53 38.0 3.17e-01 87.2% 84.1%
3p9aF00 1.10.132.80 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.53 38.0 2.88e-01 92.3% 54.5%
3o27B00 2.10.260.10 Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D › 0.53 36.0 3.36e-01 79.5% 52.6%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 41.0 2.79e-01 97.4% 44.7%
3e0jB00 3.90.1030.20 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › DNA polymerase delta, p66 (Cdc27) subunit, wHTH domain 0.52 37.0 2.68e-01 82.1% 42.0%
1dzkA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.52 41.0 2.92e-01 97.4% 52.7%
4pkcC00 6.20.90.20 Special › Other non-globular › SH3 type barrels. › Benzylsuccinate synthase gamma subunit 0.52 38.0 3.77e-01 82.1% 70.7%
4wfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 37.0 2.66e-01 97.4% 22.9%
3h6qA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.51 36.0 2.51e-01 79.5% 26.8%
4lejA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 38.0 2.65e-01 94.9% 51.7%
2ok5A02 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.51 34.0 2.24e-01 71.8% 99.1%
2hv2A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 35.0 3.01e-01 94.9% 89.5%
3aonA00 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.50 40.0 2.69e-01 100.0% 30.9%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954522 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.75 61.0 4.71e-01 97.4% 40.4%
4886985 7523.1.1.16 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › DctP 0.75 55.0 3.79e-01 84.6% 24.8%
5040847 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.73 50.0 2.96e-01 71.8% 9.5%
184816 376.1.3.11 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › zf-HC5HC2H_2 0.71 55.0 4.51e-01 92.3% 45.6%
4932525 246.2.1.1 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.69 53.0 3.24e-01 89.7% 24.4%
3769484 243.3.1.1 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Cystatin 0.67 51.0 4.05e-01 84.6% 63.7%
3674227 11.1.5.7 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Adap_comp_sub 0.65 47.0 3.49e-01 79.5% 27.0%
3744519 101.1.2.535 ↗ alpha arrays › HTH › HTH › winged helix domain › PF25889 0.65 47.0 3.19e-01 79.5% 18.1%
5036533 3435.1.1.0 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.64 44.0 2.73e-01 71.8% 17.3%
5049119 221.10.1.1 ↗ a+b two layers › beta-Grasp › FdhD/NarQ beta-grasp fold domain › FdhD/NarQ beta-grasp fold domain › FdhD-NarQ 0.63 42.0 3.32e-01 82.1% 30.6%
4183868 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.63 46.0 3.74e-01 76.9% 39.2%
4973288 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.62 41.0 3.69e-01 76.9% 47.3%
5007619 3010.1.1.2 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › Lon_C 0.61 42.0 3.16e-01 71.8% 46.4%
3926149 2004.1.1.87 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.61 43.0 3.00e-01 76.9% 27.3%
5032176 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.60 49.0 4.40e-01 100.0% 65.0%
5036805 3010.1.1.2 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › Lon_C 0.60 42.0 3.27e-01 74.4% 53.7%
3941757 101.1.9.32 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT 0.59 46.0 3.44e-01 100.0% 43.8%
4120721 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.59 42.0 2.53e-01 87.2% 9.3%
5050213 192.2.1.87 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › ATP-synt_D 0.59 46.0 3.07e-01 92.3% 20.0%
5074082 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.59 44.0 3.08e-01 87.2% 31.7%
3933222 101.1.2.111 ↗ alpha arrays › HTH › HTH › winged helix domain › RQC 0.59 43.0 3.09e-01 94.9% 31.6%
3266052 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.58 41.0 2.88e-01 76.9% 21.4%
4179803 4964.1.1.2 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.58 40.0 2.69e-01 79.5% 18.5%
5048881 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.58 40.0 2.72e-01 82.1% 17.7%
5049862 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 42.0 2.84e-01 84.6% 56.6%
3602563 2007.1.5.14 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › ATC-like › PF27247 0.57 43.0 3.20e-01 92.3% 94.4%
5037750 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.57 43.0 2.85e-01 94.9% 18.5%
3413597 101.1.2.394 ↗ alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 0.56 41.0 2.45e-01 79.5% 10.1%
4238490 812.2.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cyanase C-terminal domain › Cyanase C-terminal domain › Cyanate_lyase 0.56 39.0 3.54e-01 92.3% 49.2%
4444422 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 38.0 2.90e-01 79.5% 45.5%
3038102 1.1.3.0 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB 0.55 38.0 3.54e-01 79.5% 55.4%
1282166 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.54 38.0 3.46e-01 82.1% 51.7%
3491344 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 37.0 3.15e-01 82.1% 40.5%
1665018 298.1.1.6 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › G6PD_C 0.54 39.0 2.50e-01 100.0% 17.6%
3325240 70.3.1.1 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.54 41.0 2.87e-01 97.4% 71.7%
4541164 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.53 40.0 2.66e-01 94.9% 25.5%
4189845 4964.1.1.0 ↗ alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.53 37.0 2.35e-01 71.8% 20.5%
4047331 221.10.1.1 ↗ a+b two layers › beta-Grasp › FdhD/NarQ beta-grasp fold domain › FdhD/NarQ beta-grasp fold domain › FdhD-NarQ 0.53 38.0 3.06e-01 97.4% 33.0%
5073146 2004.1.1.164 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Roc 0.53 38.0 2.64e-01 79.5% 19.4%
3603693 101.1.2.145 ↗ alpha arrays › HTH › HTH › winged helix domain › HHH_4 0.52 37.0 2.55e-01 82.1% 48.2%
3456692 386.1.1.4 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.52 36.0 3.49e-01 92.3% 96.6%
3730463 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 42.0 3.05e-01 100.0% 83.1%
3995477 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 37.0 3.48e-01 74.4% 52.7%
5041611 3926.1.1.1 ↗ alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.52 39.0 2.68e-01 97.4% 23.6%
4975329 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.51 38.0 2.66e-01 87.2% 37.1%
5035417 3010.1.1.0 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains 0.51 37.0 2.96e-01 79.5% 30.5%
3957852 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.51 38.0 2.94e-01 89.7% 71.3%
3927041 4.1.1.25 ↗ beta barrels › SH3 › SH3 › SH3 › PAZ 0.50 35.0 2.65e-01 84.6% 53.1%
3570836 3246.1.1.1 ↗ few secondary structure elements › Disulfide-rich domain in A Disintegrin And Metalloprotease (ADAM) domain-containing proteins › Disulfide-rich domain in A Disintegrin And Metalloprotease (ADAM) domain-containing proteins › Disulfide-rich domain in A Disintegrin And Metalloprotease (ADAM) domain-containing proteins › ADAM_CR 0.50 39.0 2.83e-01 82.1% 60.7%