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NC_070873.1__YP_010659856.1__PP767_gp08__00008

Bact-Vir

NC_070873.1__YP_010659856.1__PP767_gp08__00008

Identity

Accession:
NC_070873 ↗
Kingdom:
phage

Quality

81.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Gamaleyavirus› Escherichia_phage_St11Ph5

TaxID: 2047765

Cluster

View cluster (5 members)

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 5-54
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m55A00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.71 59.0 4.07e-01 100.0% 64.2%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.70 60.0 3.90e-01 100.0% 74.1%
2hc5A01 3.30.160.170 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › FlaG-like 0.67 48.0 3.96e-01 78.0% 45.9%
1xreA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.66 55.0 4.38e-01 100.0% 72.3%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.65 54.0 4.32e-01 100.0% 72.6%
7x0fA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.62 43.0 3.15e-01 74.0% 64.9%
1xexB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 44.0 3.18e-01 78.0% 26.7%
6kbyA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.61 46.0 2.81e-01 86.0% 61.6%
3na2A00 3.40.1570.20 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › 0.58 39.0 2.90e-01 72.0% 37.0%
3lmmA01 3.30.950.30 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Schlafen, AAA domain 0.58 48.0 3.50e-01 96.0% 73.5%
2r41A00 3.10.450.150 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › enterococcus faecalis protein 0.58 46.0 3.86e-01 100.0% 76.7%
3hlzA02 1.20.120.1090 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 41.0 3.18e-01 80.0% 72.1%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.57 41.0 3.31e-01 80.0% 73.4%
4e6xB00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.56 41.0 2.63e-01 82.0% 65.8%
2eixA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 44.0 3.44e-01 86.0% 90.6%
1d0nA06 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.56 39.0 2.95e-01 84.0% 29.9%
4d0qA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 41.0 2.94e-01 82.0% 74.5%
3akjA01 3.30.200.120 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.55 38.0 3.37e-01 72.0% 54.1%
2vxtI00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.54 44.0 3.22e-01 96.0% 85.9%
4rudA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.54 41.0 4.02e-01 92.0% 87.9%
2p4zA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 38.0 2.43e-01 98.0% 14.2%
4qd4A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 39.0 2.45e-01 86.0% 63.0%
2z86D02 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.53 41.0 2.65e-01 100.0% 16.5%
4bkwA03 3.30.500.40 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.53 42.0 3.35e-01 98.0% 60.3%
2pjyC00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.53 40.0 3.65e-01 92.0% 86.1%
2q0oA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.53 43.0 3.14e-01 100.0% 91.1%
1yfbA00 2.10.260.10 Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D › 0.52 37.0 3.66e-01 76.0% 73.1%
4geiA00 2.60.40.640 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 37.0 2.74e-01 78.0% 75.7%
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 39.0 2.91e-01 100.0% 30.1%
3ptyA02 2.60.120.940 Mainly Beta › Sandwich › Jelly Rolls › EmbC, C-terminal domain, subdomain 2 0.51 35.0 2.46e-01 74.0% 39.3%
6mv2A02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 40.0 3.18e-01 88.0% 98.1%
2m4vA00 2.20.28.270 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › RNA polymerase-binding protein A 0.51 43.0 3.70e-01 96.0% 85.0%
1eu3A01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.50 41.0 3.08e-01 90.0% 46.7%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5022751 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.71 57.0 4.74e-01 94.0% 96.8%
3363778 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.69 59.0 5.80e-01 100.0% 96.4%
3260834 228.1.1.1 ↗ a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C 0.67 57.0 4.47e-01 100.0% 70.4%
3616430 864.1.1.0 ↗ a+b two layers › DLC › DLC › DLC 0.66 47.0 3.58e-01 76.0% 60.0%
157785 228.1.1.1 ↗ a+b three layers › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Fe,Mn superoxide dismutase (SOD)-C › Sod_Fe_C 0.66 55.0 4.39e-01 100.0% 73.0%
5000533 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 45.0 3.57e-01 100.0% 35.8%
3838184 212.1.1.12 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › UPF0029 0.60 44.0 3.44e-01 82.0% 68.0%
3194958 236.1.1.0 ↗ beta barrels › GroES-like › GroES-related › Alcohol dehydrogenase-like, N-terminal domain 0.60 44.0 3.14e-01 80.0% 57.4%
5021275 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 40.0 3.20e-01 70.0% 37.3%
4004645 3478.1.1.7 ↗ extended segments › Histidine kinase receptor ArcB membrane domain › Histidine kinase receptor ArcB membrane domain › Histidine kinase receptor ArcB membrane domain › DUF2207 0.59 42.0 2.82e-01 78.0% 21.9%
3280283 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.59 45.0 2.75e-01 86.0% 64.3%
4509437 3351.1.1.1 ↗ a/b three-layered sandwiches › Atg7 N-terminal domain-like › N-terminal domain in E1 enzyme Atg7 › N-terminal domain in E1 enzyme Atg7 › ATG7_N 0.59 47.0 3.81e-01 100.0% 75.7%
5064158 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.57 45.0 2.72e-01 86.0% 68.7%
3993677 823.1.1.0 ↗ a+b two layers › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW › Head-to-tail joining protein W, gpW 0.57 41.0 3.73e-01 100.0% 55.7%
3182769 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.56 42.0 2.55e-01 86.0% 64.6%
5079277 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.56 40.0 3.90e-01 80.0% 86.2%
3817532 109.4.1.2179 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_3, DYW_deaminase, E_motif 0.56 46.0 2.63e-01 98.0% 61.0%
4022629 223.3.1.0 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins 0.55 40.0 2.64e-01 84.0% 21.5%
3419370 6063.1.1.0 ↗ alpha duplicates or obligate multimers › BNIP3 transmembrane domain › BNIP3 transmembrane domain › BNIP3 transmembrane domain 0.55 37.0 3.71e-01 70.0% 70.0%
3387142 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 43.0 3.09e-01 98.0% 92.6%
5012782 3501.1.1.2 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › DUF2067 0.55 35.0 3.24e-01 98.0% 50.8%
3789543 6.1.1.40 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › PF29113 0.55 44.0 3.45e-01 100.0% 77.7%
4298582 11.1.5.16 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › PCuAC 0.55 42.0 3.16e-01 86.0% 60.0%
3435214 109.4.1.2064 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif, TPR_24 0.54 45.0 2.53e-01 98.0% 57.3%
3264101 4261.1.1.2 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › BK_channel_a 0.54 42.0 3.23e-01 84.0% 60.0%
4947457 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.54 41.0 2.58e-01 98.0% 13.7%
3442732 109.4.1.1269 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, E_motif 0.54 43.0 3.21e-01 90.0% 52.3%
141070 223.3.1.1 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.54 43.0 4.16e-01 100.0% 80.7%
3817317 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.54 44.0 2.43e-01 100.0% 39.4%
3719897 227.1.1.18 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › DUF7881_C 0.53 44.0 3.43e-01 100.0% 52.0%
3811388 221.1.1.82 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PADRE 0.53 39.0 3.55e-01 80.0% 78.6%
3679906 11.1.1.813 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › INTS4_C 0.53 40.0 3.10e-01 86.0% 68.0%
3676373 109.4.1.1291 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, DYW_deaminase, E_motif 0.53 42.0 2.40e-01 88.0% 11.4%
3988679 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.53 45.0 2.74e-01 98.0% 15.2%
3294223 304.9.1.47 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › DUF4283 0.53 35.0 3.30e-01 76.0% 51.4%
3321758 109.4.1.1285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, Eplus_motif, E_motif 0.52 44.0 2.51e-01 100.0% 57.5%
4993775 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.52 36.0 3.56e-01 74.0% 78.2%
3468311 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.52 44.0 2.70e-01 100.0% 19.3%
5066729 632.3.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain 0.51 41.0 3.41e-01 90.0% 92.2%
3651717 7512.1.1.6 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.51 43.0 2.74e-01 96.0% 54.5%
3419693 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.51 40.0 2.71e-01 88.0% 32.3%