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LC667451.1__BDD79901.1__X__00382

Bact-Vir

LC667451.1__BDD79901.1__X__00382

Identity

Accession:
LC667451 ↗
Kingdom:
phage

Quality

80.1 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 75-227
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF25677.3 best Chimallin_Phikzvirus 39.9 2.80e-10 99.4% 23.1%
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4bs9A05 3.30.160.660 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.63 35.0 4.02e-01 96.1% 72.8%
1ffvB04 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.58 45.0 4.12e-01 81.0% 69.2%
4obmA00 3.40.630.190 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein 0.57 44.0 3.65e-01 79.7% 93.0%
6f1uK02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.56 45.0 4.66e-01 100.0% 91.7%
4ka7A01 1.10.1370.40 Mainly Alpha › Orthogonal Bundle › Neurolysin; domain 3 › 0.56 45.0 3.27e-01 95.4% 31.5%
4akrA02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.56 45.0 4.57e-01 100.0% 89.8%
1uyvA01 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.55 49.0 4.13e-01 99.3% 95.4%
2hngA00 3.10.420.10 Alpha Beta › Roll › Bacterial Protein-export protein SecB › SecB-like 0.54 29.0 3.19e-01 86.3% 61.6%
2ayaA00 3.30.300.150 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › DNA polymerase III, tau subunit, domain V 0.54 37.0 3.96e-01 87.6% 82.8%
4g6tB00 6.10.20.120 Special › Helix non-globular › Arc Repressor Mutant, subunit A › 0.53 20.0 2.88e-01 79.7% 73.2%
1fuiA01 3.40.50.1070 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 47.0 4.54e-01 100.0% 84.0%
2e1qC08 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.53 40.0 3.86e-01 78.4% 95.9%
3ngqA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.52 47.0 3.68e-01 100.0% 72.2%
2qx2A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.51 46.0 3.65e-01 98.7% 61.0%
3wa2X01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 29.0 3.65e-01 100.0% 96.6%
3f1zI00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 27.0 3.11e-01 79.1% 68.1%
4ebjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.50 30.0 3.31e-01 74.5% 69.5%
6nydC00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.50 38.0 3.76e-01 100.0% 74.1%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4026241 2485.2.1.0 a+b three layers › Thioredoxin-like › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RNA 3'-terminal phosphate cyclase, RPTC, insert domain 0.61 39.0 4.52e-01 99.3% 89.1%
3917010 243.3.1.20 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › AKAP28 0.60 43.0 4.67e-01 100.0% 89.6%
3739446 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.59 35.0 4.32e-01 98.7% 93.7%
3225749 231.1.1.3 a+b two layers › MocoBD/DmpA-related › MocoBD/DmpA-related › Molybdenum cofactor-binding domain › MoCoBD_1, MoCoBD_2 0.59 46.0 3.08e-01 82.4% 58.0%
3519013 2498.1.1.6 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.59 45.0 3.03e-01 95.4% 20.8%
4978521 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.57 42.0 4.67e-01 88.2% 96.7%
4137281 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.55 49.0 3.69e-01 98.0% 55.8%
3219454 2484.1.1.190 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FBA_2 0.55 28.0 2.40e-01 85.6% 28.0%
3643275 7579.1.1.5 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S10 0.54 47.0 3.38e-01 94.1% 98.4%
5065721 231.1.1.1 a+b two layers › MocoBD/DmpA-related › MocoBD/DmpA-related › Molybdenum cofactor-binding domain › MoCoBD_1 0.54 42.0 2.92e-01 82.4% 52.4%
4335178 3016.1.1.0 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.53 36.0 4.06e-01 99.3% 94.5%
3417120 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.53 36.0 4.05e-01 96.1% 89.2%
4160518 3016.1.1.11 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SelA 0.52 35.0 4.09e-01 99.3% 99.0%
4023469 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.52 39.0 4.03e-01 98.7% 83.6%
3427427 243.3.1.47 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF7074 0.52 30.0 3.70e-01 94.8% 94.4%
4145584 3016.1.1.11 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SelA 0.52 34.0 3.97e-01 98.0% 97.1%
3836021 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.52 47.0 3.59e-01 100.0% 74.3%
4256472 3016.1.1.11 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SelA 0.52 34.0 3.96e-01 97.4% 96.2%
5031590 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.52 30.0 3.47e-01 77.1% 79.0%
3795688 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.52 46.0 3.51e-01 98.0% 71.5%
4460812 3016.1.1.11 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › SelA 0.51 35.0 4.02e-01 98.7% 97.3%
3215733 7579.1.1.14 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_3 0.51 41.0 3.41e-01 85.0% 90.9%
3253011 2498.1.1.6 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.51 45.0 2.93e-01 95.4% 22.1%
3253988 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 29.0 3.21e-01 78.4% 66.7%
3717466 4051.1.1.1 a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F_actin_cap_B 0.51 46.0 4.33e-01 100.0% 85.8%
4256745 4292.2.1.0 a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.51 36.0 3.91e-01 96.7% 86.9%
3496161 508.1.1.1 a+b three layers › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › PIH1 0.50 37.0 3.58e-01 75.2% 82.4%
3298547 7579.1.1.5 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S10 0.50 44.0 3.13e-01 96.1% 98.5%
3668385 243.1.1.89 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF7074 0.50 29.0 3.63e-01 94.8% 96.7%
D2 high residues 248-306_323-494_564-589
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF25677.3 best Chimallin_Phikzvirus 151.1 5.90e-44 91.0% 40.8%
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2jdcA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 35.0 4.61e-01 92.6% 97.2%
3r1kA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 32.0 4.36e-01 91.4% 97.0%
6rftA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 31.0 4.24e-01 91.4% 96.2%
4r0mA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.60 24.0 3.68e-01 89.9% 88.0%
1s3zA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.59 33.0 4.31e-01 88.7% 94.6%
4gs5A02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.59 22.0 3.52e-01 89.9% 84.8%
2pr1A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 34.0 4.32e-01 93.8% 97.4%
3jvnA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 28.0 3.99e-01 91.4% 97.5%
1amuA04 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.54 21.0 3.29e-01 91.1% 91.7%
3e7wA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.52 22.0 3.22e-01 90.7% 86.5%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3740184 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.66 34.0 4.44e-01 76.3% 86.2%
2816343 213.1.1.27 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.61 36.0 4.60e-01 95.3% 96.8%
3612674 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.60 37.0 4.66e-01 95.7% 98.1%
3265386 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.59 36.0 4.58e-01 92.6% 100.0%
3290246 327.5.1.0 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins 0.58 26.0 3.60e-01 88.7% 83.3%
4976057 327.5.1.0 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins 0.55 23.0 3.41e-01 88.7% 91.0%
3175551 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.55 38.0 4.28e-01 92.6% 90.0%
4877633 213.1.1.14 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_16 0.54 35.0 4.02e-01 91.8% 86.3%
4478425 213.1.1.14 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_16 0.53 37.0 4.19e-01 92.2% 90.5%
3600505 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.52 46.0 4.34e-01 92.6% 91.3%
4084869 213.1.1.14 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_16 0.52 34.0 4.08e-01 92.2% 97.1%
4982136 327.5.1.0 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins 0.51 25.0 3.51e-01 91.4% 97.5%
4943842 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.51 35.0 4.10e-01 92.2% 98.4%
D3 medium residues 495-563
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF25677.3 best Chimallin_Phikzvirus 56.8 2.10e-15 100.0% 11.2%
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wd6A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 41.0 3.51e-01 72.5% 88.1%
2zxqA06 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.58 40.0 4.07e-01 72.5% 80.3%
4dccA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 42.0 4.20e-01 88.4% 75.7%
3ieeA02 1.20.58.820 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Uncharacterised protein PF12889, C-terminal DUF3829 0.55 42.0 3.69e-01 82.6% 95.1%
3tl4X02 1.10.10.2420 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 41.0 4.08e-01 100.0% 79.2%
4ml1A02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 36.0 3.04e-01 84.1% 39.5%
1pixA03 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.52 41.0 2.70e-01 87.0% 89.6%
3ddhA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.52 41.0 3.94e-01 88.4% 79.0%
7kznP01 3.30.740.10 Alpha Beta › 2-Layer Sandwich › Protein Inhibitor Of Neuronal Nitric Oxide Synthase › Protein Inhibitor Of Neuronal Nitric Oxide Synthase; 0.51 39.0 3.61e-01 85.5% 78.5%
2a6cA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.50 38.0 3.70e-01 84.1% 81.6%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3265048 592.1.1.7 alpha arrays › PWI domain-like › PWI domain › PWI domain › PF26091 0.59 43.0 4.34e-01 81.2% 85.7%
5021551 316.1.1.11 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › GrpB 0.54 40.0 3.15e-01 81.2% 35.6%
4955941 5065.1.1.3 alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › BPD_transp_2 0.53 41.0 2.78e-01 88.4% 65.7%
3939835 110.1.1.0 alpha arrays › DEATH domain › DEATH domain › DEATH domain 0.52 40.0 3.49e-01 85.5% 72.7%
4003844 148.1.3.22 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_5 0.51 39.0 3.45e-01 87.0% 58.2%