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NC_055841.1__YP_010107344.1__KNU99_gp199__00202

Bact-Vir

NC_055841.1__YP_010107344.1__KNU99_gp199__00202

Identity

Accession:
NC_055841 ↗
Kingdom:
phage

Quality

82.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Heverleevirus› Agrobacterium_phage_OLIVR5

TaxID: 2723773

Cluster

View cluster (241 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 medium residues 15-36_54-98_127-138
PDB
Domain cluster: representative
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3flkA00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.58 45.0 2.96e-01 84.8% 96.4%
6le1A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 40.0 4.21e-01 79.7% 86.8%
1tdjA03 3.40.1020.10 Alpha Beta › 3-Layer(aba) Sandwich › Biosynthetic Threonine Deaminase; domain 3 › Biosynthetic Threonine Deaminase; Domain 3 0.55 39.0 3.19e-01 87.3% 37.3%
5fiiB00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.55 41.0 4.19e-01 86.1% 82.1%
3ty4B00 3.40.718.10 Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase 0.54 41.0 2.76e-01 84.8% 96.4%
2cphA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 41.0 4.16e-01 87.3% 83.5%
1vx4407 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 37.0 3.93e-01 86.1% 84.1%
3cjeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.51 39.0 3.22e-01 82.3% 84.7%
ECOD (10)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3254525 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 48.0 4.83e-01 86.1% 81.2%
5022463 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 43.0 4.65e-01 89.9% 90.8%
3601299 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.56 45.0 3.91e-01 89.9% 79.2%
5049862 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 29.0 2.27e-01 74.7% 22.3%
5000881 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 37.0 3.07e-01 72.2% 88.4%
3499106 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.54 38.0 2.45e-01 74.7% 73.8%
3166631 304.9.1.34 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › SET1_RBD 0.53 41.0 3.43e-01 86.1% 50.0%
3722015 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.52 38.0 2.38e-01 77.2% 59.6%
4541115 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.52 36.0 3.21e-01 74.7% 56.0%
3717098 862.1.1.7 ↗ a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › PPL5 0.50 40.0 2.86e-01 93.7% 51.4%
D2 medium residues 99-126_139-166
PDB
Domain cluster: rep: IMGVR_UViG_3300026259_000067-3300026259-Ga0208896_100296912__D9-65
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3eaaA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.77 68.0 4.86e-01 100.0% 52.5%
4hkhA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.76 68.0 4.96e-01 100.0% 44.3%
4w64B00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.72 62.0 4.54e-01 100.0% 45.0%
2gu1A01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.71 51.0 4.34e-01 100.0% 47.7%
1pjxA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.64 46.0 2.87e-01 100.0% 13.7%
2ymaA00 3.10.310.60 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.62 40.0 3.09e-01 92.9% 27.4%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.60 51.0 3.27e-01 100.0% 20.8%
4r03A00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.59 53.0 4.23e-01 100.0% 60.6%
2ox7A01 2.30.30.310 Mainly Beta › Roll › SH3 type barrels. › YopX-like domains 0.58 43.0 4.21e-01 96.4% 74.2%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 47.0 3.53e-01 91.1% 35.4%
1t62B00 3.10.400.10 Alpha Beta › Roll › Sulfate adenylyltransferase › Sulfate adenylyltransferase 0.56 43.0 3.24e-01 89.3% 52.1%
2hd9A00 3.10.590.10 Alpha Beta › Roll › ph1033 like fold › ph1033 like domains 0.56 44.0 3.42e-01 94.6% 75.9%
3girA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.56 36.0 3.25e-01 85.7% 43.0%
4l8oA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 45.0 3.25e-01 91.1% 33.5%
3buuB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.55 48.0 3.22e-01 100.0% 25.5%
3dtdD00 2.60.40.1880 Mainly Beta › Sandwich › Immunoglobulin-like › Invasion associated locus B (IalB) protein 0.55 48.0 3.58e-01 100.0% 49.0%
1v5vA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.54 35.0 3.11e-01 87.5% 40.2%
3bk5A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.54 47.0 3.15e-01 100.0% 32.8%
1yx2A02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.54 35.0 3.17e-01 87.5% 43.0%
2dadA00 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.54 31.0 2.67e-01 80.4% 34.4%
3a8kA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.53 35.0 3.13e-01 87.5% 42.0%
1iyjB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 42.0 3.46e-01 91.1% 79.8%
1lrzA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 46.0 3.42e-01 98.2% 51.0%
1iicA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 47.0 3.04e-01 100.0% 57.7%
2qrdA00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.53 41.0 3.28e-01 92.9% 42.1%
2f2hA04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 48.0 3.81e-01 100.0% 67.0%
3tthB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 45.0 3.29e-01 100.0% 43.9%
5h8yD02 3.30.413.10 Alpha Beta › 2-Layer Sandwich › Sulfite Reductase Hemoprotein; domain 1 › Sulfite Reductase Hemoprotein, domain 1 0.52 44.0 3.08e-01 100.0% 49.3%
1xe4A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 46.0 3.26e-01 98.2% 43.9%
4h89A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 45.0 3.18e-01 98.2% 43.5%
4ll1C02 2.60.40.640 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 44.0 3.34e-01 100.0% 68.6%
3l81A01 2.60.40.1170 Mainly Beta › Sandwich › Immunoglobulin-like › Mu homology domain, subdomain B 0.51 42.0 3.12e-01 91.1% 72.9%
1vkcA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 46.0 3.39e-01 100.0% 54.0%
1vhsA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.51 46.0 3.24e-01 100.0% 46.1%
4iknA01 2.60.40.1170 Mainly Beta › Sandwich › Immunoglobulin-like › Mu homology domain, subdomain B 0.50 42.0 3.09e-01 91.1% 60.8%
4rs2A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 44.0 3.09e-01 100.0% 74.4%
2ft0A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.50 45.0 2.99e-01 100.0% 28.8%
1eqnB01 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.50 41.0 3.17e-01 91.1% 80.2%
2j3vA02 3.90.176.10 Alpha Beta › Alpha-Beta Complex › Toxin ADP-ribosyltransferase; Chain A, domain 1 › Toxin ADP-ribosyltransferase; Chain A, domain 1 0.50 39.0 2.74e-01 91.1% 46.7%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4995820 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.97 76.0 5.54e-01 82.1% 43.1%
3581358 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.96 76.0 5.26e-01 82.1% 36.1%
4995819 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.95 76.0 5.34e-01 83.9% 38.0%
2471637 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.82 72.0 5.13e-01 94.6% 40.3%
3602454 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.77 62.0 5.65e-01 87.5% 81.1%
4465258 79.1.1.18 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Sarcoglycan_1 0.70 40.0 3.29e-01 87.5% 31.0%
3411216 79.1.1.18 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Sarcoglycan_1 0.70 39.0 3.21e-01 87.5% 31.0%
4498332 71.1.1.2 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.69 42.0 3.00e-01 91.1% 20.6%
4499276 79.1.1.18 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Sarcoglycan_1 0.69 40.0 3.52e-01 87.5% 38.7%
3559319 101.1.11.134 ↗ alpha arrays › HTH › HTH › Ribbon-helix-helix › Sarcoglycan_1 0.67 39.0 3.82e-01 87.5% 51.7%
3275758 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.66 52.0 3.03e-01 100.0% 9.6%
3950877 3459.1.1.0 ↗ beta sandwiches › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule › Fas apoptotic inhibitory molecule 0.65 45.0 4.32e-01 94.6% 63.1%
3681710 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.60 49.0 4.15e-01 92.9% 55.8%
3419015 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.58 41.0 4.33e-01 89.3% 86.0%
2066755 304.107.1.1 ↗ a+b two layers › Alpha-beta plaits › Aminomethyltransferase folate-binding domain › Aminomethyltransferase folate-binding domain › GCV_T 0.57 36.0 3.16e-01 82.1% 37.8%
5042979 241.1.1.30 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › PF26556 0.56 49.0 3.61e-01 100.0% 76.7%
4555719 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.55 50.0 3.69e-01 100.0% 57.9%
4000395 2007.1.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.55 49.0 3.31e-01 100.0% 32.4%
3262596 101.1.12.0 ↗ alpha arrays › HTH › HTH › HTH motif inserted in other structures 0.55 35.0 3.93e-01 85.7% 92.5%
3724523 4121.1.1.7 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › PF26616 0.54 49.0 2.93e-01 100.0% 25.6%
4944014 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 47.0 3.77e-01 100.0% 82.6%
3500109 211.1.1.1 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase 0.54 43.0 2.67e-01 87.5% 22.2%
3427155 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.54 48.0 2.99e-01 100.0% 77.3%
3511356 4056.1.1.1 ↗ beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Phage_prot_Gp6 0.53 46.0 3.75e-01 96.4% 70.5%
3474589 211.1.1.0 ↗ a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.53 42.0 3.01e-01 87.5% 43.6%
3221377 9.11.1.0 ↗ beta barrels › Lipocalins/Streptavidin › YdhA-like › YdhA-like 0.53 46.0 3.70e-01 100.0% 57.4%
5072214 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 45.0 3.71e-01 100.0% 84.5%
4401040 213.1.1.27 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.52 47.0 4.01e-01 100.0% 74.4%
None — 0.52 47.0 2.99e-01 100.0% 87.9%
3968297 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.52 36.0 2.76e-01 91.1% 28.7%
3442788 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.51 46.0 3.00e-01 100.0% 84.5%
None — 0.51 46.0 2.92e-01 100.0% 83.6%
3599587 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 43.0 3.10e-01 100.0% 73.0%
3589604 213.1.1.31 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.51 45.0 3.35e-01 98.2% 49.6%
3463706 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.51 46.0 2.97e-01 100.0% 73.6%
None — 0.51 46.0 2.93e-01 100.0% 89.6%
3643018 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.51 46.0 3.00e-01 100.0% 88.5%
3466596 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.51 45.0 3.03e-01 100.0% 87.4%
3264346 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.51 44.0 2.94e-01 98.2% 52.3%
3677629 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.50 41.0 3.87e-01 92.9% 74.3%
3426629 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.50 45.0 3.29e-01 100.0% 79.3%
3339684 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.50 39.0 3.14e-01 100.0% 40.0%
None — 0.50 44.0 2.81e-01 100.0% 82.5%
3444939 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.50 45.0 2.78e-01 100.0% 75.8%