←Back to structures

NC_055721.1__YP_010090843.1__KNT65_gp148__00148

Bact-Vir

NC_055721.1__YP_010090843.1__KNT65_gp148__00148

Identity

Accession:
NC_055721 ↗
Kingdom:
phage

Quality

84.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Kagamiyamavirus› Escherichia_phage_EcS1

TaxID: 2083276

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 4-62
PDB
Domain cluster: rep: NC_048736.1__YP_009841887.1__HWB92_gp019__00019__D4-60
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2f9wA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.75 60.0 4.66e-01 100.0% 40.5%
2ymaA00 3.10.310.60 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.72 56.0 4.15e-01 100.0% 35.6%
3cqyB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.72 64.0 4.51e-01 100.0% 50.5%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.69 56.0 5.30e-01 91.5% 74.6%
7vbnL01 3.30.160.190 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › atu1810 like domain 0.68 60.0 5.17e-01 100.0% 77.9%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 54.0 4.26e-01 93.2% 41.7%
5h8yD02 3.30.413.10 Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 0.67 54.0 3.81e-01 93.2% 37.9%
7oufB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.65 57.0 4.28e-01 100.0% 43.0%
1v89A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 54.0 4.37e-01 94.9% 49.2%
1xc3A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.64 53.0 4.46e-01 100.0% 54.4%
3u3gA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 54.0 4.15e-01 100.0% 52.9%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.62 45.0 3.27e-01 78.0% 28.3%
4e19A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.61 52.0 4.09e-01 100.0% 52.6%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.59 44.0 3.34e-01 83.1% 66.2%
3votB02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 43.0 2.80e-01 83.1% 47.1%
2r7hB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 44.0 3.22e-01 86.4% 62.9%
3i2nA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 49.0 3.05e-01 100.0% 88.7%
2lpuA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.56 44.0 3.35e-01 89.8% 68.9%
4kvxA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 43.0 3.23e-01 86.4% 65.8%
4gxbA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 43.0 3.67e-01 91.5% 54.8%
4hwxA00 3.30.350.10 Alpha Beta › 2-Layer Sandwich › Subtilisin Inhibitor › Subtilisin inhibitor-like 0.54 46.0 3.79e-01 98.3% 93.9%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 44.0 3.89e-01 100.0% 99.0%
2pn1A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.54 48.0 3.82e-01 100.0% 76.7%
3iwgA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 42.0 3.23e-01 86.4% 65.9%
6i0iA00 3.30.350.10 Alpha Beta › 2-Layer Sandwich › Subtilisin Inhibitor › Subtilisin inhibitor-like 0.53 45.0 3.76e-01 98.3% 96.3%
2hdlA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.53 42.0 3.95e-01 94.9% 70.1%
3oc4B03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.53 46.0 3.65e-01 98.3% 74.4%
1vkcA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 41.0 3.19e-01 86.4% 77.0%
1q48A00 3.90.1010.10 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.52 43.0 3.49e-01 100.0% 61.2%
3l81A01 2.60.40.1170 Mainly Beta › Sandwich › Immunoglobulin-like › Mu homology domain, subdomain B 0.52 43.0 3.42e-01 100.0% 95.0%
5f44C01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 41.0 3.33e-01 89.8% 73.6%
3b34A04 2.60.40.1840 Mainly Beta › Sandwich › Immunoglobulin-like › Aminopeptidase N, middle-beta domain 0.52 45.0 3.81e-01 100.0% 98.0%
7r97A02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 39.0 3.83e-01 89.8% 75.0%
5nz7A01 2.70.98.40 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Glycoside hydrolase, family 65, N-terminal domain 0.51 44.0 2.78e-01 98.3% 24.9%
1dgsA04 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 40.0 3.78e-01 89.8% 94.5%
2ba1D01 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.51 41.0 2.94e-01 100.0% 57.4%
ECOD (65)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4057793 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.72 44.0 3.19e-01 84.7% 21.8%
3288859 295.1.1.27 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PF25991 0.72 52.0 5.03e-01 83.1% 69.2%
3239059 4210.1.1.1 ↗ a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.70 59.0 4.73e-01 94.9% 60.8%
3272573 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.70 61.0 5.64e-01 96.6% 77.3%
3169052 3561.1.1.1 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 17 › Mediator of RNA polymerase II transcription subunit 17 › Mediator of RNA polymerase II transcription subunit 17 › Med17 0.70 58.0 3.41e-01 93.2% 11.1%
4257113 295.1.1.27 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PF25991 0.70 50.0 4.79e-01 83.1% 64.3%
5051984 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.70 60.0 4.82e-01 100.0% 48.3%
3364715 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.70 61.0 5.43e-01 100.0% 83.5%
3326860 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.69 61.0 5.42e-01 100.0% 88.2%
3785390 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.69 51.0 3.93e-01 78.0% 94.4%
3277493 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.69 57.0 4.63e-01 91.5% 49.1%
4210059 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.69 59.0 4.08e-01 100.0% 46.5%
3496857 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.68 55.0 4.58e-01 93.2% 50.5%
4144852 220.1.1.126 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Ycf4 0.68 58.0 4.84e-01 100.0% 56.5%
3971209 274.1.1.4 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › T2SSI 0.67 48.0 3.85e-01 79.7% 40.0%
3941314 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.67 58.0 4.68e-01 100.0% 61.7%
4183880 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.67 59.0 3.58e-01 100.0% 36.5%
4380331 295.1.1.27 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PF25991 0.66 47.0 4.51e-01 83.1% 64.3%
4061056 2004.1.1.100 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NTPase_1 0.65 58.0 4.08e-01 100.0% 40.6%
4122019 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.64 54.0 4.46e-01 100.0% 50.4%
3236475 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.64 50.0 3.98e-01 89.8% 67.4%
5043517 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.64 52.0 3.85e-01 100.0% 38.4%
4063575 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.64 55.0 4.50e-01 100.0% 51.3%
3572103 220.1.1.74 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H 0.64 51.0 4.03e-01 93.2% 45.2%
3464233 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.64 54.0 4.99e-01 100.0% 88.7%
4237828 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.64 54.0 3.85e-01 100.0% 47.7%
1826875 330.13.1.1 ↗ a+b two layers › dsRBD-like › dGTP triphosphohydrolase inhibitor › dGTP triphosphohydrolase inhibitor › T7-like_gp12 0.63 51.0 4.57e-01 91.5% 65.9%
4027865 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.63 52.0 4.01e-01 89.8% 71.5%
3258726 2003.1.2.18 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.63 55.0 3.22e-01 98.3% 14.0%
865437 241.1.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C 0.63 50.0 3.76e-01 89.8% 64.9%
3208973 4099.1.1.4 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O 0.62 51.0 4.14e-01 89.8% 77.2%
3940245 213.1.1.31 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.62 50.0 3.81e-01 86.4% 79.2%
4953226 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.62 43.0 4.19e-01 76.3% 66.2%
5071331 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 48.0 4.33e-01 100.0% 60.0%
3240914 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 53.0 4.62e-01 100.0% 62.1%
3351393 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 52.0 4.58e-01 100.0% 82.1%
4019290 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.62 52.0 4.21e-01 100.0% 48.3%
5059130 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 50.0 4.12e-01 91.5% 75.5%
3470912 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.61 50.0 4.07e-01 94.9% 50.8%
4582465 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.61 50.0 4.16e-01 94.9% 53.6%
3997819 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 51.0 3.79e-01 100.0% 42.9%
3495452 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.60 51.0 3.32e-01 100.0% 20.0%
4039156 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.60 49.0 4.19e-01 100.0% 55.5%
3628965 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.59 48.0 3.61e-01 94.9% 33.9%
3745675 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.59 41.0 3.45e-01 74.6% 58.2%
4023575 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.59 46.0 3.96e-01 86.4% 57.9%
3689537 2484.1.1.90 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DEDDh_C 0.58 49.0 3.46e-01 100.0% 48.3%
3454372 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.57 48.0 4.15e-01 100.0% 69.0%
3708180 7039.1.1.0 ↗ a+b complex topology › Helical domain of PCIF1/CAPAM › Helical domain of PCIF1/CAPAM › Helical domain of PCIF1/CAPAM 0.57 45.0 3.03e-01 88.1% 36.7%
3250601 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.56 44.0 2.86e-01 91.5% 71.5%
4208391 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 49.0 3.99e-01 100.0% 86.1%
5040512 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.56 45.0 2.81e-01 89.8% 17.6%
3250605 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 43.0 3.57e-01 91.5% 71.2%
3275009 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.56 43.0 3.38e-01 89.8% 41.3%
3876143 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 43.0 3.44e-01 89.8% 82.2%
3883616 378.1.1.1 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_NS 0.56 45.0 3.01e-01 91.5% 85.7%
3508084 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.55 43.0 3.94e-01 91.5% 62.4%
4928052 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 0.55 45.0 2.86e-01 94.9% 64.5%
3639782 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.54 41.0 3.42e-01 91.5% 73.8%
4021523 2007.2.3.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Syja_N 0.54 45.0 2.92e-01 100.0% 80.9%
3264346 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.52 39.0 2.73e-01 84.7% 74.1%
3839957 102.1.1.4 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › 5_3_exonuc 0.52 43.0 2.75e-01 100.0% 18.2%
3220074 244.2.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain 0.52 41.0 3.57e-01 93.2% 82.0%
3323590 292.2.1.17 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › LOR 0.51 43.0 3.63e-01 100.0% 82.7%
3439556 708.1.1.8 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › FAR1 0.51 41.0 3.52e-01 96.6% 77.1%