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NC_070780.1__YP_010651053.1__PP428_gp216__00216

Bact-Vir

NC_070780.1__YP_010651053.1__PP428_gp216__00216

Identity

Accession:
NC_070780 ↗
Kingdom:
phage

Quality

76.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Gaprivervirus› Escherichia_phage_vB_EcoM_RZ

TaxID: 2893954

Cluster

View cluster (78 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 14-86
PDB
Domain cluster: rep: Salt_Pond_R1_B_D2_MG_scaffold_4_prodigal-single.1__X__X__00404__D11-51_164-208
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5mmjh01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.76 57.0 5.71e-01 90.4% 78.7%
1ug8A00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.74 65.0 6.12e-01 100.0% 81.6%
1i6uA01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.74 57.0 5.88e-01 94.5% 88.2%
2gukA00 3.30.2190.10 Alpha Beta › 2-Layer Sandwich › PG1857-like › PG1857-like 0.72 58.0 4.99e-01 97.3% 56.8%
1dctA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.70 58.0 4.40e-01 100.0% 38.7%
2c7rA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.69 61.0 4.40e-01 98.6% 38.4%
2h00B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.68 60.0 4.29e-01 100.0% 33.8%
2f1fA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.67 44.0 4.32e-01 72.6% 62.0%
2hqyA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 51.0 4.28e-01 95.9% 46.9%
4obxA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.66 55.0 3.85e-01 91.8% 60.0%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.66 43.0 4.42e-01 76.7% 70.6%
1o7dC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.65 48.0 4.56e-01 95.9% 65.2%
5x7fA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.65 53.0 3.90e-01 95.9% 33.3%
2axyA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.65 45.0 4.62e-01 72.6% 73.6%
2nzcB00 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.65 42.0 4.15e-01 76.7% 60.5%
5yppA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 42.0 3.98e-01 72.6% 54.4%
4dkjA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 55.0 3.72e-01 98.6% 31.4%
2b3tA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 56.0 4.17e-01 100.0% 45.3%
3pqvC01 3.65.10.20 Alpha Beta › Alpha-beta prism › UDP-n-acetylglucosamine1-carboxyvinyl-transferase; Chain › RNA 3'-terminal phosphate cyclase domain 0.64 55.0 3.85e-01 100.0% 51.8%
4tshB01 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.63 51.0 3.85e-01 100.0% 37.0%
4dzrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 51.0 3.98e-01 95.9% 40.5%
3ocjA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 54.0 3.59e-01 97.3% 34.0%
2h1yA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.62 39.0 4.03e-01 84.9% 65.7%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.62 50.0 4.77e-01 98.6% 75.0%
2mzwA01 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.62 42.0 4.21e-01 71.2% 68.4%
3me5A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 51.0 3.63e-01 95.9% 36.3%
3hyiA01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.61 53.0 3.97e-01 100.0% 40.8%
3qwuA03 3.30.70.2160 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 45.0 3.68e-01 80.8% 81.3%
2cy2A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 51.0 3.94e-01 100.0% 40.8%
2r3sA03 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 50.0 3.66e-01 94.5% 43.4%
1q5yC00 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.60 39.0 3.85e-01 72.6% 61.0%
1b24A01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.59 50.0 4.67e-01 97.3% 77.9%
2hnkA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 51.0 3.64e-01 100.0% 45.0%
2fiaB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 49.0 3.91e-01 100.0% 44.7%
1u5tB01 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 0.58 50.0 4.80e-01 100.0% 98.8%
2dchX01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.58 51.0 4.72e-01 100.0% 78.5%
3zxoA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.57 48.0 4.10e-01 95.9% 85.6%
3njcA00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.57 48.0 3.85e-01 95.9% 74.5%
3dfeA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 4.04e-01 87.7% 69.5%
1ub9A00 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 0.57 43.0 3.95e-01 91.8% 61.0%
3lnlB02 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 4.02e-01 83.6% 67.0%
3c1mA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.56 49.0 3.83e-01 100.0% 87.2%
2qmwA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 42.0 3.96e-01 90.4% 65.6%
3o1lB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 41.0 3.92e-01 83.6% 73.9%
3n0vA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 40.0 3.88e-01 82.2% 75.0%
3d7aA01 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.53 34.0 2.90e-01 71.2% 34.6%
1dr9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.85e-01 94.5% 66.3%
1t7vA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 41.0 3.90e-01 94.5% 71.1%
5h20A00 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 0.52 46.0 4.09e-01 100.0% 69.9%
1ej6A05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 42.0 3.93e-01 90.4% 69.5%
3nrbB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 39.0 3.82e-01 83.6% 77.1%
5l10B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.52 45.0 3.46e-01 98.6% 95.9%
1zpvA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 40.0 3.85e-01 86.3% 72.9%
1kyzA01 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 0.51 44.0 4.02e-01 100.0% 72.8%
3elkA00 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 0.51 45.0 4.02e-01 100.0% 69.5%
7r3eB02 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 36.0 2.95e-01 79.5% 67.5%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4126441 320.2.1.1 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.77 59.0 6.40e-01 90.4% 98.3%
4357374 320.2.1.1 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.77 60.0 6.27e-01 90.4% 92.3%
3591554 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.74 65.0 6.51e-01 100.0% 94.7%
2849954 320.2.1.1 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.74 57.0 5.66e-01 90.4% 80.3%
3286580 304.159.1.1 ↗ a+b two layers › Alpha-beta plaits › Alpha-beta plait domain in NisB › Alpha-beta plait domain in NisB › Lant_dehydr_C 0.73 52.0 4.65e-01 74.0% 58.0%
5044585 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.73 65.0 4.24e-01 100.0% 26.2%
3273255 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.73 63.0 4.53e-01 95.9% 34.5%
3507294 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.70 57.0 4.71e-01 94.5% 48.9%
3823903 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.70 61.0 5.31e-01 100.0% 62.6%
4966161 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.70 59.0 5.97e-01 100.0% 95.9%
5030356 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.70 63.0 3.99e-01 100.0% 22.6%
4624378 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.69 60.0 3.95e-01 98.6% 25.2%
4619396 2003.1.5.25 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GidB 0.69 55.0 3.88e-01 91.8% 27.7%
3343178 320.2.1.0 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain 0.69 54.0 5.67e-01 86.3% 95.4%
3190328 328.1.1.3 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.68 58.0 5.38e-01 95.9% 75.3%
4238737 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.68 59.0 3.80e-01 100.0% 23.9%
3814789 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.68 44.0 4.59e-01 72.6% 73.8%
3555254 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.68 47.0 4.59e-01 72.6% 68.8%
3479172 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.67 46.0 4.42e-01 75.3% 61.2%
None — 0.67 60.0 4.09e-01 100.0% 36.2%
None — 0.67 54.0 3.86e-01 91.8% 28.7%
3351908 320.1.1.7 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain › PUS7L_N 0.67 57.0 5.62e-01 97.3% 91.3%
5052110 4956.1.1.0 ↗ a+b two layers › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.67 46.0 4.64e-01 72.6% 70.7%
4372405 2003.1.5.25 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › GidB 0.67 55.0 3.86e-01 91.8% 28.5%
1159603 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.67 50.0 4.88e-01 89.0% 72.8%
3429592 320.1.1.0 ↗ a+b two layers › R3H domain-like › R3H domain › R3H domain 0.67 57.0 5.70e-01 97.3% 97.3%
4974217 2003.1.5.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DNA_methylase 0.66 58.0 3.74e-01 100.0% 23.1%
3271436 2003.1.5.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › FtsJ 0.65 55.0 3.87e-01 95.9% 29.2%
4105277 2003.1.5.82 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.65 57.0 4.17e-01 100.0% 43.5%
3609340 306.3.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1 0.64 48.0 4.39e-01 84.9% 61.1%
5046687 304.8.1.21 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_9 0.62 44.0 4.38e-01 98.6% 72.0%
5077552 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.62 43.0 4.02e-01 74.0% 65.3%
3692980 304.9.1.40 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › BRAP2 0.62 43.0 3.58e-01 74.0% 40.0%
4373762 242.1.1.2 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 0.62 55.0 4.63e-01 98.6% 73.3%
4771543 327.3.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › GMP synthetase C-terminal dimerisation domain › GMP synthetase C-terminal dimerisation domain 0.62 50.0 5.14e-01 100.0% 98.5%
5045564 2003.1.5.8 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Ubie_methyltran 0.61 51.0 3.74e-01 97.3% 47.8%
3735073 304.9.1.9 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_2 0.61 45.0 3.10e-01 79.5% 21.8%
3740868 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.61 43.0 4.24e-01 74.0% 71.2%
3176671 2003.1.5.46 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › MTS 0.61 51.0 3.56e-01 94.5% 35.3%
4994235 2003.1.5.8 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Ubie_methyltran 0.61 53.0 3.74e-01 100.0% 98.3%
4934117 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.60 51.0 4.85e-01 95.9% 81.2%
1211839 242.1.1.7 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.59 49.0 4.57e-01 95.9% 79.2%
4466116 2003.1.5.8 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Ubie_methyltran 0.59 48.0 3.48e-01 94.5% 45.1%
4987588 304.8.1.82 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › PF27325 0.58 39.0 3.60e-01 72.6% 52.6%
4948615 304.8.1.21 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_9 0.58 45.0 3.60e-01 84.9% 88.0%
3497053 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.58 44.0 3.95e-01 86.3% 57.1%
3223732 2003.1.5.42 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_21 0.58 48.0 3.61e-01 94.5% 37.9%
4983426 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 48.0 4.69e-01 100.0% 83.7%
4284507 101.1.2.101 ↗ alpha arrays › HTH › HTH › winged helix domain › Cdc6_C 0.57 51.0 4.55e-01 100.0% 78.1%
5048761 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 43.0 4.39e-01 98.6% 91.4%
3609469 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 45.0 4.14e-01 100.0% 72.6%
3676678 101.1.2.528 ↗ alpha arrays › HTH › HTH › winged helix domain › PF31130 0.53 46.0 4.08e-01 100.0% 81.5%
3281436 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.51 42.0 3.46e-01 100.0% 86.5%