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NC_055736.1__YP_010093518.1__KNT80_gp75__00075

Bact-Vir

NC_055736.1__YP_010093518.1__KNT80_gp75__00075

Identity

Accession:
NC_055736 ↗
Kingdom:
phage

Quality

79.1 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 2-61
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ossC00 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.70 44.0 4.34e-01 98.3% 60.0%
1c8bA00 3.40.50.1450 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HybD-like 0.69 51.0 3.22e-01 80.0% 64.7%
2plgA01 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.68 58.0 4.58e-01 100.0% 85.6%
1nrvA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.67 59.0 5.02e-01 100.0% 85.0%
3mwxA00 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.65 52.0 3.35e-01 91.7% 98.1%
1r7lA00 3.30.2120.10 Alpha Beta › 2-Layer Sandwich › Bacillus phage protein › Bacillus phage protein-like 0.62 49.0 4.13e-01 98.3% 50.5%
3oe3C00 2.40.128.200 Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor 0.62 53.0 4.75e-01 98.3% 85.2%
4l5tB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.62 47.0 4.13e-01 81.7% 76.9%
3oajA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.61 43.0 3.34e-01 76.7% 70.1%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 50.0 4.19e-01 96.7% 52.4%
5zg8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 44.0 3.80e-01 80.0% 73.5%
1qw2A00 3.30.1980.10 Alpha Beta › 2-Layer Sandwich › Hypothetical protein Ta1206 fold › Hypothetical protein YunC 0.58 51.0 4.31e-01 100.0% 84.3%
1oxxK02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 40.0 4.42e-01 91.7% 95.6%
3nm6B00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.58 49.0 3.35e-01 96.7% 90.4%
7nn3B01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.58 49.0 3.16e-01 100.0% 82.0%
4bubA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.58 46.0 3.17e-01 100.0% 23.9%
4n9jA02 3.30.1120.130 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.57 49.0 4.06e-01 96.7% 63.6%
2it1A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 39.0 3.93e-01 88.3% 70.5%
2p0wA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 45.0 3.55e-01 90.0% 66.9%
3eeiA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.56 46.0 3.24e-01 98.3% 90.5%
2qpzA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.56 47.0 3.91e-01 91.7% 62.1%
2nn5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 48.0 3.53e-01 100.0% 48.5%
3d89A00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.55 49.0 3.76e-01 100.0% 50.0%
2w18A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 43.0 2.76e-01 86.7% 93.1%
4g41A00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.55 45.0 3.14e-01 98.3% 88.1%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.54 46.0 3.78e-01 100.0% 82.5%
1tltA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 40.0 2.87e-01 80.0% 62.4%
2lc4A00 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.54 43.0 3.57e-01 90.0% 48.6%
2e4qA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.54 48.0 3.95e-01 100.0% 63.0%
2nvnA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 44.0 3.64e-01 100.0% 81.7%
3gceA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.53 43.0 3.71e-01 95.0% 99.0%
2x3hA00 2.160.20.10 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › Single-stranded right-handed beta-helix, Pectin lyase-like 0.53 38.0 2.26e-01 100.0% 9.4%
4ms4B02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.52 44.0 3.27e-01 100.0% 90.0%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.52 45.0 3.50e-01 96.7% 69.2%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.52 44.0 4.00e-01 93.3% 70.0%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.52 43.0 3.81e-01 96.7% 80.2%
2jaeA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 44.0 3.19e-01 100.0% 84.9%
4c23B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 40.0 2.78e-01 90.0% 28.2%
2jo6A00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.52 44.0 3.70e-01 100.0% 67.3%
1fr3A00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.51 40.0 3.86e-01 88.3% 74.6%
8f5dA05 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.51 41.0 2.87e-01 100.0% 25.3%
3fvqA03 2.40.50.470 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 35.0 3.56e-01 91.7% 74.1%
2ivwA01 2.30.30.830 Mainly Beta › Roll › SH3 type barrels. › 0.50 41.0 3.79e-01 95.0% 77.5%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3276895 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.74 51.0 3.02e-01 71.7% 25.4%
5045719 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.73 51.0 4.06e-01 93.3% 36.3%
4975637 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.70 61.0 5.61e-01 100.0% 85.0%
4324652 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.68 49.0 3.31e-01 95.0% 20.4%
3967714 241.1.1.6 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › YbjN 0.68 58.0 4.52e-01 100.0% 78.6%
4987649 3110.1.1.0 ↗ a/b three-layered sandwiches › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain 0.65 52.0 3.49e-01 88.3% 35.2%
3649955 6.1.1.12 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Agglutinin 0.62 51.0 3.75e-01 91.7% 83.7%
3002312 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.61 52.0 4.34e-01 100.0% 81.4%
5043286 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.61 53.0 4.76e-01 98.3% 92.9%
3604653 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.61 48.0 2.96e-01 88.3% 56.1%
4969870 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.61 52.0 3.21e-01 96.7% 32.5%
4323652 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.59 49.0 4.06e-01 96.7% 51.4%
3609816 66.1.1.3 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Sol_Rieske_ferrdox 0.59 50.0 3.76e-01 93.3% 47.6%
5001101 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.59 46.0 4.69e-01 100.0% 88.3%
4066165 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.59 44.0 3.81e-01 93.3% 50.5%
3209385 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.59 51.0 4.97e-01 95.0% 93.8%
223929 3618.1.1.2 ↗ beta complex topology › Flagellin beta sheet domain › Flagellin beta sheet domain › Flagellin beta sheet domain › FliC-like_3rd 0.59 42.0 4.04e-01 73.3% 85.1%
4010681 4.31.1.1 ↗ beta barrels › SH3 › Central WYL domain of RspWYL1 › Central WYL domain of RspWYL1 › WYL 0.59 47.0 4.07e-01 88.3% 55.8%
4971254 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.59 51.0 3.94e-01 96.7% 86.9%
3577264 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.58 40.0 3.05e-01 85.0% 28.7%
3234330 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.58 51.0 4.13e-01 96.7% 60.9%
5035858 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 47.0 3.69e-01 91.7% 59.3%
3722269 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.58 50.0 4.80e-01 98.3% 91.4%
4190130 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.55 40.0 3.49e-01 88.3% 51.1%
5017464 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 45.0 3.86e-01 91.7% 78.0%
4990152 2006.1.3.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim 0.55 46.0 3.64e-01 96.7% 84.4%
3921260 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 47.0 3.75e-01 96.7% 51.7%
4437811 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.54 43.0 3.22e-01 86.7% 92.0%
4929704 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.54 48.0 3.62e-01 98.3% 47.1%
3605286 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.54 46.0 3.89e-01 96.7% 84.0%
3884574 66.1.1.3 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Sol_Rieske_ferrdox 0.53 45.0 3.54e-01 100.0% 82.8%
None — 0.53 37.0 2.35e-01 73.3% 17.5%
2756575 2003.1.10.20 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › ATPgraspMvdD 0.53 42.0 3.33e-01 86.7% 59.2%
3920715 2004.1.1.674 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21, AAA_23, SbcC_Walker_B 0.53 39.0 2.31e-01 80.0% 19.4%
4958458 66.1.1.1 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.52 45.0 3.58e-01 98.3% 51.6%
4478612 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.52 37.0 2.99e-01 88.3% 36.7%
3587134 12.6.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related 0.52 39.0 4.02e-01 90.0% 94.5%
4969327 1.1.1.0 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease 0.51 43.0 3.34e-01 96.7% 90.0%
3952658 2484.1.1.113 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › baeRF_family2 0.51 41.0 3.32e-01 91.7% 60.8%
4051997 2.4.1.3 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2,OB_MalK 0.51 39.0 3.17e-01 93.3% 42.5%
2797622 2003.1.10.20 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain › ATPgraspMvdD 0.51 39.0 3.16e-01 86.7% 57.9%