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NC_053509.1__YP_010013223.1__J4T98_gp114__00125

Bact-Vir

NC_053509.1__YP_010013223.1__J4T98_gp114__00125

Identity

Accession:
NC_053509 ↗
Kingdom:
phage

Quality

76.0 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 20-91
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ybvA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.72 62.0 5.16e-01 93.1% 96.7%
2o5nA02 3.30.500.30 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.71 56.0 4.25e-01 83.3% 84.1%
7snsB01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.71 57.0 4.33e-01 86.1% 42.6%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.68 61.0 4.77e-01 100.0% 68.0%
1q57G01 2.20.25.180 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.68 50.0 5.05e-01 79.2% 89.0%
1iwlA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.68 54.0 4.03e-01 87.5% 35.0%
4hgzA02 2.20.25.570 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.67 47.0 5.12e-01 77.8% 88.3%
3rd6A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.65 59.0 4.67e-01 100.0% 72.9%
1ugiD00 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.64 53.0 5.14e-01 90.3% 97.6%
4jocA00 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.64 49.0 3.13e-01 83.3% 94.4%
2z4hA01 2.40.128.300 Mainly Beta › Beta Barrel › Lipocalin › NlpE, N-terminal domain 0.63 50.0 4.84e-01 84.7% 87.3%
8bddA02 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.62 50.0 3.21e-01 88.9% 78.1%
5ksdA04 3.40.1110.10 Alpha Beta › 3-Layer(aba) Sandwich › Calcium-transporting ATPase, cytoplasmic domain N › Calcium-transporting ATPase, cytoplasmic domain N 0.62 51.0 4.06e-01 91.7% 79.7%
3dgtA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.62 54.0 3.62e-01 97.2% 74.5%
2ichA02 2.40.370.10 Mainly Beta › Beta Barrel › AttH-like fold › AttH-like domain 0.61 48.0 3.96e-01 84.7% 57.7%
3zqsA01 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.60 52.0 4.94e-01 100.0% 80.7%
5ay6A01 2.60.98.20 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › Flagellar hook protein FlgE 0.60 54.0 4.05e-01 98.6% 86.0%
1avgI00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 51.0 4.08e-01 94.4% 61.3%
1qwdB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 47.0 3.63e-01 86.1% 46.4%
8aimG01 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.59 42.0 4.08e-01 75.0% 100.0%
1sgoA01 3.30.2280.10 Alpha Beta › 2-Layer Sandwich › copper amine oxidase-like fold › Hypothetical protein (hspc210) 0.59 50.0 4.40e-01 100.0% 63.9%
3ci0K01 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.58 45.0 3.99e-01 91.7% 58.7%
2il5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 50.0 3.91e-01 100.0% 71.0%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 48.0 3.81e-01 91.7% 97.9%
4nvrA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 43.0 2.94e-01 84.7% 99.7%
3pg1A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 47.0 3.97e-01 95.8% 78.3%
7fisA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.57 46.0 3.16e-01 94.4% 52.2%
3eliA00 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 3.94e-01 100.0% 72.9%
1lj5A02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 46.0 3.67e-01 93.1% 78.6%
4dy0B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 40.0 3.31e-01 87.5% 42.2%
4gyiA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.55 46.0 4.19e-01 93.1% 90.8%
1e69A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 48.0 3.28e-01 97.2% 41.8%
3mnmA00 2.60.40.1230 Mainly Beta › Sandwich › Immunoglobulin-like › Gamma-adaptin ear (GAE) domain 0.54 43.0 3.78e-01 88.9% 80.4%
5ih0A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 46.0 4.25e-01 95.8% 91.4%
1zylA01 3.30.200.70 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.53 44.0 4.51e-01 100.0% 94.3%
2x0qA01 3.30.310.280 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.53 39.0 3.34e-01 83.3% 75.2%
1zarA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 46.0 4.42e-01 97.2% 90.1%
4qrlA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.52 43.0 3.88e-01 97.2% 89.1%
6ibkA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 45.0 4.10e-01 97.2% 91.8%
1iicA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 42.0 3.03e-01 94.4% 63.3%
3f7wA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 44.0 4.14e-01 95.8% 94.5%
5ighA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 44.0 4.19e-01 95.8% 93.2%
4l68A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 45.0 3.90e-01 95.8% 66.4%
6zxfz01 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.52 45.0 3.85e-01 100.0% 89.4%
1gwyA00 2.60.270.20 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › Cytolysin/lectin 0.52 43.0 3.42e-01 100.0% 48.0%
3k1dA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.51 43.0 3.83e-01 95.8% 96.2%
6bbtB01 2.60.40.3050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 44.0 3.61e-01 100.0% 92.1%
5fq0A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 45.0 3.90e-01 100.0% 69.1%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4959370 71.1.1.0 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.84 60.0 4.47e-01 75.0% 44.0%
3248970 101.1.12.0 alpha arrays › HTH › HTH › HTH motif inserted in other structures 0.77 53.0 4.53e-01 70.8% 100.0%
4934439 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.76 68.0 4.03e-01 95.8% 25.7%
3624850 331.9.1.9 a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › PF26171 0.70 56.0 4.94e-01 98.6% 59.0%
4941675 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.70 62.0 3.68e-01 95.8% 25.4%
5044144 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.69 61.0 4.78e-01 95.8% 86.2%
3237828 331.9.1.9 a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › PF26171 0.69 55.0 4.78e-01 98.6% 56.4%
408891 331.3.1.9 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.69 62.0 4.80e-01 100.0% 67.1%
3536489 331.9.1.5 a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › AP4E_app_platf 0.69 54.0 4.78e-01 100.0% 58.1%
3252050 12.3.1.0 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.69 56.0 3.95e-01 87.5% 93.8%
3337523 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.68 54.0 4.03e-01 83.3% 91.5%
3763927 331.9.1.9 a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain › PF26171 0.68 55.0 4.73e-01 98.6% 56.9%
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 0.68 60.0 4.73e-01 100.0% 81.5%
4003420 3735.1.1.0 beta meanders › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein 0.68 59.0 3.17e-01 95.8% 17.7%
2390064 71.1.1.2 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA 0.67 53.0 3.92e-01 87.5% 32.1%
3418019 2484.1.1.67 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.67 53.0 4.01e-01 83.3% 90.6%
3887495 331.4.1.0 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.67 54.0 4.59e-01 100.0% 54.8%
3228098 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.66 58.0 5.18e-01 100.0% 77.1%
3934097 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.66 59.0 4.77e-01 100.0% 87.9%
None 0.66 59.0 3.19e-01 100.0% 20.5%
3559914 3735.1.1.0 beta meanders › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein 0.66 59.0 3.18e-01 100.0% 20.4%
3261416 897.1.1.0 a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 0.65 59.0 4.71e-01 100.0% 80.0%
3947165 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.65 52.0 4.07e-01 86.1% 42.7%
3588775 244.3.1.5 a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › GutM 0.65 52.0 4.59e-01 86.1% 71.4%
3067253 243.8.1.2 a+b two layers › Cystatin-like › Uracil-DNA glycosylase inhibitor protein › Uracil-DNA glycosylase inhibitor protein › UDI 0.65 48.0 4.53e-01 79.2% 97.7%
3976796 244.3.1.5 a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU › GutM 0.64 52.0 4.65e-01 86.1% 73.7%
3238631 2484.1.1.190 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FBA_2 0.63 51.0 3.54e-01 97.2% 25.0%
185181 11.1.1.90 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › IalB 0.63 52.0 4.16e-01 90.3% 60.6%
4386896 2002.1.1.120 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.63 51.0 3.40e-01 88.9% 43.3%
5038973 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.63 54.0 3.48e-01 100.0% 34.2%
4976692 844.1.1.0 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain 0.62 54.0 3.82e-01 100.0% 55.1%
3400053 206.1.1.98 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1, APH 0.62 46.0 3.25e-01 79.2% 92.2%
3490491 331.4.1.1 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › KA1 0.62 51.0 4.64e-01 100.0% 68.4%
3226497 145.1.1.1 alpha arrays › F-box domain › F-box domain › F-box domain › F-box 0.62 48.0 4.22e-01 97.2% 54.8%
3817243 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.62 49.0 4.09e-01 88.9% 56.3%
3929507 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.62 51.0 4.67e-01 90.3% 98.9%
3640527 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.59 53.0 3.79e-01 100.0% 47.4%
4265807 77.1.1.4 beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein › Chitin_bind_4 0.58 45.0 4.63e-01 84.7% 88.6%
3210000 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.57 51.0 3.16e-01 100.0% 22.6%
902 4252.1.1.1 beta barrels › AttH-like › AttH-like › AttH-like › CrtC 0.57 49.0 4.04e-01 97.2% 90.1%
5039832 12.3.1.0 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.56 48.0 3.77e-01 100.0% 80.6%
4160544 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.56 50.0 3.95e-01 100.0% 62.0%
4072360 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.56 49.0 3.40e-01 97.2% 76.1%
3197364 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.55 47.0 3.03e-01 95.8% 20.0%
3926228 206.1.1.28 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Haspin_kinase 0.55 49.0 3.16e-01 98.6% 36.8%
5022918 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 46.0 3.89e-01 100.0% 81.5%
3432155 206.1.1.20 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.55 47.0 3.49e-01 95.8% 43.7%
4030445 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 46.0 2.99e-01 100.0% 42.8%
2103565 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.54 46.0 3.06e-01 95.8% 28.0%
3403847 9.1.1.47 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Chitin_bind_4 0.54 48.0 4.45e-01 100.0% 98.9%
None 0.53 47.0 2.75e-01 100.0% 11.2%
None 0.53 45.0 2.55e-01 97.2% 7.7%
3380913 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 47.0 3.02e-01 100.0% 21.7%
2085742 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.53 45.0 2.99e-01 95.8% 28.2%
3988065 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.53 42.0 4.23e-01 90.3% 90.7%
390390 12.1.1.32 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Melibiase_2_C 0.52 45.0 4.02e-01 97.2% 85.6%
3431501 206.1.1.74 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, PK_Tyr_Ser-Thr 0.52 44.0 2.59e-01 97.2% 10.8%
3947367 206.1.1.35 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH_6_hur 0.52 45.0 3.01e-01 95.8% 26.4%
3348409 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 45.0 2.79e-01 98.6% 17.9%
3391207 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.51 44.0 4.12e-01 93.1% 89.9%
3465530 206.1.1.20 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.51 43.0 2.56e-01 98.6% 11.5%
3397295 12.1.1.0 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.51 44.0 4.14e-01 93.1% 96.5%
5034411 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.51 42.0 2.79e-01 100.0% 75.4%