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NC_021539.2__YP_008126726.1__LP030nr2_030__00030

Bact-Vir

NC_021539.2__YP_008126726.1__LP030nr2_030__00030

Identity

Accession:
NC_021539 ↗
Kingdom:
phage

Quality

77.0 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 high residues 45-135
PDB
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hlbA00 3.30.70.2960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.75 55.0 5.49e-01 78.0% 85.3%
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.71 62.0 5.72e-01 100.0% 74.1%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.70 50.0 4.30e-01 86.8% 46.9%
3ib5A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.70 64.0 4.25e-01 100.0% 38.3%
1yj7D02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.70 48.0 4.91e-01 71.4% 73.6%
2qx2A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.69 61.0 4.22e-01 100.0% 40.9%
4hn3A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.69 61.0 4.16e-01 100.0% 39.2%
3ux3A01 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.68 48.0 4.70e-01 72.5% 69.1%
3dnsA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.68 59.0 5.18e-01 94.5% 84.0%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.66 60.0 5.20e-01 100.0% 79.4%
2idbA02 3.40.1670.10 Alpha Beta › 3-Layer(aba) Sandwich › UbiD C-terminal domain-like › UbiD C-terminal domain-like 0.65 58.0 5.35e-01 100.0% 93.2%
1r89A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.65 46.0 4.13e-01 73.6% 70.3%
3jcmN01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.65 44.0 3.32e-01 70.3% 91.8%
4isbB02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.65 46.0 4.38e-01 73.6% 78.5%
1uwvA03 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.64 45.0 3.93e-01 76.9% 48.2%
3npdA00 3.30.300.250 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.64 55.0 5.13e-01 94.5% 75.2%
6iw6A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 44.0 4.14e-01 70.3% 82.4%
4fh3A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 43.0 3.91e-01 70.3% 73.6%
2qb7B02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.64 56.0 4.91e-01 100.0% 82.1%
2zyzC00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.63 42.0 4.16e-01 92.3% 64.6%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.62 45.0 4.51e-01 97.8% 74.7%
3tt2A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 49.0 3.42e-01 86.8% 81.3%
1j72A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.62 42.0 4.02e-01 70.3% 72.5%
3tthB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 51.0 4.17e-01 92.3% 65.2%
2dyjA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.59 41.0 4.10e-01 70.3% 80.2%
2kzfA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.58 44.0 4.21e-01 87.9% 69.8%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.58 46.0 3.43e-01 89.0% 51.8%
4owpB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.58 50.0 4.17e-01 98.9% 73.5%
3cniA00 3.40.1710.10 Alpha Beta › 3-Layer(aba) Sandwich › abc type-2 transporter like fold › abc type-2 transporter like domain 0.57 52.0 4.43e-01 100.0% 95.2%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.57 48.0 3.73e-01 93.4% 67.0%
3v8hC00 3.30.572.10 Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain 0.57 49.0 3.45e-01 94.5% 65.3%
5khaB01 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.57 50.0 3.61e-01 97.8% 53.8%
5ha4A02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.56 49.0 4.27e-01 95.6% 69.9%
1m4jA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.56 48.0 4.27e-01 96.7% 83.5%
2ei9A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.56 45.0 3.42e-01 85.7% 55.6%
1rxxC01 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.56 49.0 3.39e-01 100.0% 43.7%
3sm4A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.56 47.0 3.60e-01 95.6% 71.6%
4k30A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 44.0 3.80e-01 89.0% 60.1%
6fnnB01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.55 48.0 4.18e-01 98.9% 86.1%
1wduB00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.55 45.0 3.44e-01 90.1% 54.3%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.55 48.0 4.11e-01 97.8% 83.0%
4dunA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.54 49.0 4.36e-01 98.9% 76.4%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.54 47.0 3.58e-01 96.7% 79.5%
1w5dA02 3.50.80.20 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-Ala-D-Ala carboxypeptidase C, peptidase S13 0.54 45.0 4.40e-01 97.8% 84.3%
1ym5A01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.54 47.0 4.17e-01 100.0% 78.7%
4mfzA02 3.40.630.120 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › 0.54 46.0 3.96e-01 95.6% 98.6%
7kw0A02 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.53 44.0 3.68e-01 92.3% 64.4%
5ysnB02 3.40.50.11240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Ethanolamine ammonia-lyase light chain (EutC) 0.53 46.0 3.65e-01 96.7% 90.3%
3i3fB00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.53 38.0 3.49e-01 78.0% 92.2%
2kz0A01 3.30.300.90 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like 0.52 33.0 3.64e-01 71.4% 81.7%
3ieyB00 3.40.1350.150 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.52 42.0 3.66e-01 92.3% 63.2%
3lklA00 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.52 43.0 4.30e-01 98.9% 92.5%
4a8jF00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 2.91e-01 83.5% 74.4%
2vsqA06 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.51 42.0 4.05e-01 96.7% 80.0%
6s2vC02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.51 45.0 3.85e-01 97.8% 73.8%
3fveA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.50 44.0 3.76e-01 100.0% 74.7%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4984735 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.76 52.0 4.55e-01 70.3% 55.6%
4964988 327.6.1.1 a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › NifU 0.74 53.0 5.49e-01 98.9% 78.8%
369229 3535.1.1.1 a+b two layers › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › CamS 0.74 65.0 5.90e-01 100.0% 72.5%
4093245 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.74 50.0 3.29e-01 76.9% 17.7%
4411957 327.10.1.6 a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › DNA_pol3_a_NI 0.73 51.0 5.38e-01 71.4% 95.0%
4967158 327.7.1.19 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › Cas_Cas4 0.71 53.0 4.89e-01 96.7% 61.7%
1164098 3535.1.1.1 a+b two layers › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › CamS 0.71 62.0 5.72e-01 100.0% 74.1%
4029444 2003.1.5.196 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM5-TYW2_MTfase, tRNA_U5-meth_tr 0.70 52.0 3.32e-01 78.0% 21.6%
4078398 2003.1.5.174 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_15 0.70 51.0 3.30e-01 76.9% 17.8%
4992530 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.69 47.0 4.54e-01 70.3% 70.2%
4028003 327.6.1.1 a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › NifU 0.68 46.0 3.76e-01 70.3% 37.6%
3788378 327.6.1.1 a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › NifU 0.68 48.0 4.41e-01 72.5% 59.1%
168869 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.68 59.0 5.18e-01 94.5% 84.0%
4114221 327.10.1.2 a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › RBFA 0.67 46.0 4.28e-01 70.3% 67.8%
3247951 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.66 60.0 5.32e-01 100.0% 83.1%
3395681 5104.1.1.3 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA2 0.66 60.0 5.11e-01 100.0% 82.1%
3511272 327.7.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like 0.66 48.0 5.01e-01 100.0% 82.4%
3284958 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 0.66 46.0 4.45e-01 73.6% 80.0%
2667421 286.1.1.5 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › CntK_N 0.66 60.0 5.04e-01 100.0% 72.5%
4477167 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.65 58.0 5.12e-01 100.0% 81.5%
3744273 327.7.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like 0.65 45.0 4.63e-01 71.4% 82.4%
4257883 2003.1.5.156 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr, Methyltransf_31 0.64 52.0 3.37e-01 86.8% 23.1%
3998708 5104.1.1.2 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › CDC45 0.64 57.0 4.84e-01 100.0% 84.7%
4612674 2003.1.5.53 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › tRNA_U5-meth_tr 0.63 51.0 3.34e-01 87.9% 22.6%
4988258 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.63 57.0 5.22e-01 100.0% 77.5%
5000619 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.59 52.0 4.81e-01 100.0% 83.2%
4565386 327.10.1.2 a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › RBFA 0.58 47.0 4.38e-01 90.1% 70.4%
3743593 59.1.1.0 beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like 0.58 34.0 3.64e-01 70.3% 66.3%
222168 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.57 48.0 3.73e-01 93.4% 67.0%
4945759 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 47.0 4.15e-01 100.0% 60.7%
3668547 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.56 45.0 3.38e-01 89.0% 51.0%
3316722 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.56 45.0 3.50e-01 86.8% 61.1%
3663972 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.56 45.0 3.33e-01 86.8% 50.8%
3675211 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.56 44.0 3.34e-01 86.8% 52.8%