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NC_074762.1__YP_010774580.1__QJ534_gp06__00006

Bact-Vir

NC_074762.1__YP_010774580.1__QJ534_gp06__00006

Identity

Accession:
NC_074762 ↗
Kingdom:
phage

Quality

72.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 medium residues 31-115
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4xq7A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.67 51.0 4.16e-01 81.2% 61.5%
6f1uK02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.67 47.0 3.95e-01 74.1% 46.9%
3ebyA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.66 46.0 3.80e-01 72.9% 82.4%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.65 47.0 4.54e-01 82.4% 66.7%
1tluA00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.63 44.0 3.97e-01 82.4% 52.1%
4e72A01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.61 44.0 3.94e-01 77.6% 68.5%
4r80A00 3.10.450.630 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 41.0 4.33e-01 72.9% 80.3%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.60 42.0 4.19e-01 85.9% 70.8%
3q90B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 41.0 3.62e-01 71.8% 82.3%
3kztA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 43.0 3.80e-01 77.6% 83.3%
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.59 40.0 4.18e-01 70.6% 78.5%
2jq5A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 41.0 3.62e-01 71.8% 70.3%
5jenA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.59 43.0 3.97e-01 77.6% 95.5%
3a1jB00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.58 48.0 3.44e-01 91.8% 43.9%
1wzvA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.58 38.0 3.23e-01 72.9% 38.0%
3fo5B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 46.0 3.49e-01 89.4% 55.8%
2cc3A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.58 40.0 3.47e-01 72.9% 74.3%
7l15A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 44.0 4.01e-01 81.2% 95.6%
2bolA03 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 46.0 4.53e-01 89.4% 100.0%
1aj6A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.57 47.0 3.70e-01 92.9% 82.0%
4kz1A00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.57 40.0 3.49e-01 74.1% 78.5%
2lyxA00 3.10.450.390 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Protein of unknown function DUF3889 0.56 40.0 3.97e-01 77.6% 72.4%
3cygA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.56 43.0 3.88e-01 83.5% 66.4%
4l1nA00 2.40.128.660 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF15525, DUF4652 0.56 38.0 3.17e-01 71.8% 50.3%
1ml8A02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.55 39.0 3.79e-01 75.3% 84.5%
3cjeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.55 38.0 3.20e-01 72.9% 56.0%
1q4tA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 40.0 3.38e-01 77.6% 64.1%
3qt2A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 41.0 3.98e-01 81.2% 89.7%
1e8oD00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.54 37.0 3.85e-01 90.6% 78.9%
2ffsA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 42.0 3.59e-01 85.9% 66.2%
3s5tA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.54 39.0 3.33e-01 78.8% 69.9%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.54 36.0 4.05e-01 71.8% 100.0%
3pg1A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 35.0 3.14e-01 75.3% 44.2%
5ds1A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 42.0 4.15e-01 85.9% 78.3%
3k7cA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 40.0 3.78e-01 83.5% 93.5%
1dpgA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 42.0 2.92e-01 88.2% 78.3%
2h2yA01 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.53 35.0 3.27e-01 76.5% 50.9%
1ry6A00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.52 40.0 2.83e-01 88.2% 63.6%
2oq8A00 2.60.40.2930 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 36.0 3.05e-01 74.1% 53.3%
4boeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 38.0 3.21e-01 80.0% 63.0%
6em3x01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.51 39.0 3.19e-01 85.9% 87.6%
2rk9B00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 38.0 3.42e-01 78.8% 100.0%
3cqnB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.50 39.0 3.25e-01 85.9% 46.6%
4xrtA02 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.50 37.0 3.09e-01 78.8% 90.6%
2bvbA00 2.60.120.710 Mainly Beta › Sandwich › Jelly Rolls › Toxoplasma gondii micronemal protein 1 TgMIC1 0.50 37.0 3.24e-01 80.0% 57.7%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
6647 241.8.1.1 a+b two layers › Type III secretory system chaperone-like › GK1464-like › GK1464-like › DUF5634 0.65 47.0 4.54e-01 84.7% 67.0%
3378755 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.64 46.0 4.07e-01 76.5% 51.2%
3460976 5.1.3.142 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.64 46.0 3.02e-01 75.3% 29.6%
3443030 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.63 43.0 4.44e-01 71.8% 76.2%
3274239 330.1.1.18 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_DHX29 0.62 42.0 3.84e-01 72.9% 52.2%
3807917 331.3.1.3 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.59 46.0 3.40e-01 85.9% 46.3%
3507498 227.1.1.11 a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.59 48.0 4.05e-01 91.8% 81.3%
4946323 3435.1.1.0 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.58 43.0 3.96e-01 80.0% 67.8%
3258377 331.23.1.0 a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain 0.58 41.0 4.04e-01 83.5% 71.1%
3297423 2484.1.1.198 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Dimer_Tnp_hAT, DUF4371 0.58 36.0 2.16e-01 83.5% 8.8%
3650282 243.5.1.8 a+b two layers › Cystatin-like › Amine oxidase N-terminal region › Amine oxidase N-terminal region › DUF7074 0.57 41.0 4.06e-01 75.3% 80.9%
3429037 5.1.3.118 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.57 42.0 2.83e-01 77.6% 32.0%
3854465 283.2.1.8 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › PF29994 0.57 43.0 3.87e-01 81.2% 74.2%
3431244 5.1.4.122 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF295 0.57 42.0 2.80e-01 77.6% 23.2%
5036065 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.57 39.0 4.14e-01 72.9% 85.3%
3806012 5.1.3.67 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.56 39.0 2.68e-01 74.1% 27.3%
4029209 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.56 33.0 3.54e-01 80.0% 68.6%
3610755 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 39.0 3.55e-01 72.9% 53.9%
3192363 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.56 40.0 2.57e-01 74.1% 87.2%
4386515 330.1.1.30 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › PF27148 0.55 34.0 3.78e-01 75.3% 80.0%
3611951 331.3.1.3 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.55 48.0 3.61e-01 100.0% 89.8%
4926802 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 47.0 3.56e-01 92.9% 93.8%
5055184 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.55 38.0 3.81e-01 71.8% 76.5%
4970858 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.54 40.0 3.79e-01 82.4% 63.6%
3258280 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.54 42.0 3.05e-01 85.9% 88.2%
3246852 3195.1.1.1 extended segments › Mediator of RNA polymerase II transcription subunit 6 › Mediator of RNA polymerase II transcription subunit 6 › Mediator of RNA polymerase II transcription subunit 6 › Med6 0.54 40.0 3.48e-01 82.4% 66.2%
3619404 206.1.1.10 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.54 43.0 2.92e-01 89.4% 92.8%
1178585 227.1.1.13 a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.53 38.0 3.31e-01 80.0% 46.1%
4660283 227.1.1.6 a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_C 0.53 40.0 3.54e-01 80.0% 67.2%
3719460 101.1.12.0 alpha arrays › HTH › HTH › HTH motif inserted in other structures 0.53 38.0 3.34e-01 75.3% 63.1%
3517882 2484.1.1.215 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27041 0.53 40.0 2.55e-01 81.2% 57.4%
4012071 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 39.0 2.51e-01 78.8% 47.1%
3855748 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.52 41.0 3.18e-01 85.9% 61.6%
4304407 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.52 41.0 3.50e-01 83.5% 78.5%
3278650 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.52 40.0 3.51e-01 85.9% 64.3%
3306744 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.52 43.0 2.68e-01 91.8% 70.9%
3586687 206.1.1.10 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.52 40.0 3.13e-01 85.9% 36.7%
4177137 1046.1.1.1 alpha bundles › Lipoprotein signal peptidase › Lipoprotein signal peptidase › Lipoprotein signal peptidase › Peptidase_A8 0.52 36.0 2.83e-01 72.9% 91.8%
4000809 2.1.1.89 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Dis3l2_C_term 0.52 38.0 3.75e-01 81.2% 73.7%
4186865 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.52 39.0 2.68e-01 80.0% 27.0%
3460207 5.1.3.67 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.51 38.0 2.67e-01 77.6% 40.7%
3510139 223.1.1.3 a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.51 42.0 3.28e-01 91.8% 84.6%
3913349 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 35.0 2.23e-01 70.6% 93.4%
3190565 331.3.1.10 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AtaL 0.51 37.0 3.09e-01 77.6% 83.5%
144571 331.3.1.11 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.51 39.0 3.23e-01 85.9% 57.1%
3427901 2484.1.1.215 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27041 0.51 39.0 2.90e-01 89.4% 31.6%
3208139 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.51 36.0 3.52e-01 75.3% 75.8%
3593787 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.50 38.0 2.84e-01 81.2% 53.8%
1715836 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.50 37.0 3.09e-01 78.8% 90.6%
4934569 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.50 36.0 3.03e-01 74.1% 61.4%
D2 medium residues 116-304
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5kiqA02 3.10.20.890 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.61 21.0 3.35e-01 79.9% 79.2%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.58 23.0 3.55e-01 83.6% 88.3%
6efaA02 3.10.20.890 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.56 20.0 3.23e-01 79.4% 82.1%
4py5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.53 20.0 3.05e-01 79.4% 84.7%
1whzA00 3.30.920.30 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Hypothetical protein. 0.52 20.0 3.13e-01 81.0% 91.3%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3973731 304.8.1.98 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GDH_ACT3 0.51 34.0 3.79e-01 87.8% 84.7%
D3 medium residues 426-492
PDB