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NC_015274.1__YP_004306899.1__StPhDp-1_gp11__00011

Bact-Vir

NC_015274.1__YP_004306899.1__StPhDp-1_gp11__00011

Identity

Accession:
NC_015274 ↗
Kingdom:
phage

Quality

91.1 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 54-218
PDB
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3syyA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.77 63.0 5.92e-01 100.0% 71.6%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.76 61.0 5.57e-01 100.0% 66.0%
3sm4A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.75 63.0 5.59e-01 100.0% 63.6%
2zyzC00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.71 39.0 4.89e-01 81.8% 89.6%
3fovA00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.68 42.0 5.25e-01 80.6% 100.0%
1i74A02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.67 33.0 3.86e-01 84.8% 65.5%
3k93A00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.66 63.0 5.59e-01 100.0% 82.5%
2zyzB02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.66 39.0 4.89e-01 81.8% 98.9%
8d3mI01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.66 55.0 5.06e-01 100.0% 69.6%
3ieyB00 3.40.1350.150 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.65 39.0 4.11e-01 85.5% 64.5%
5zyuA01 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.63 60.0 5.57e-01 100.0% 87.6%
4q6lA00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.62 35.0 3.85e-01 84.2% 65.9%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.62 58.0 5.22e-01 100.0% 79.5%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.61 32.0 3.41e-01 81.8% 56.0%
6ll8A02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.59 31.0 3.54e-01 86.1% 66.7%
4hrvA00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.58 33.0 3.60e-01 85.5% 64.0%
2qb7B02 3.10.310.20 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › DHHA2 domain 0.57 31.0 3.35e-01 83.6% 60.7%
1xmxA02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.57 42.0 4.47e-01 77.6% 84.6%
3devA02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.55 26.0 3.07e-01 85.5% 62.1%
4py9A02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.54 27.0 3.08e-01 89.7% 61.1%
3npdA00 3.30.300.250 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.53 36.0 4.24e-01 70.3% 100.0%
5t5sA01 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.51 26.0 2.86e-01 86.7% 57.4%
2ph7A02 3.40.50.10670 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › af2093 domain 0.51 27.0 3.45e-01 72.1% 87.5%
6d6zA02 3.40.50.11440 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › LarA, N-terminal domain 0.51 40.0 3.60e-01 83.0% 78.4%
1sgoA01 3.30.2280.10 Alpha Beta › 2-Layer Sandwich › copper amine oxidase-like fold › Hypothetical protein (hspc210) 0.50 27.0 3.29e-01 75.2% 78.7%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4942551 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.88 72.0 6.44e-01 100.0% 63.6%
4928680 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.84 57.0 5.45e-01 100.0% 60.5%
4955488 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.80 49.0 5.96e-01 86.1% 91.8%
4968758 2008.1.1.224 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_3 0.80 46.0 6.03e-01 79.4% 100.0%
5076203 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.78 61.0 5.72e-01 100.0% 67.7%
148043 2008.1.1.50 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.77 63.0 5.96e-01 100.0% 72.8%
4957822 2008.1.1.224 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_3 0.77 47.0 5.28e-01 80.0% 77.5%
222168 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.76 61.0 5.57e-01 100.0% 66.0%
424674 2008.1.1.50 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YqaJ 0.76 63.0 5.57e-01 100.0% 62.4%
5012280 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.74 62.0 5.66e-01 100.0% 68.8%
4555637 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.74 58.0 5.62e-01 100.0% 73.9%
5080245 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.74 61.0 5.79e-01 100.0% 74.7%
4002824 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.72 65.0 5.24e-01 94.5% 89.5%
3629495 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 65.0 5.26e-01 98.8% 89.3%
5035680 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.69 48.0 4.67e-01 88.5% 64.6%
3221910 2008.1.1.59 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.68 64.0 5.41e-01 100.0% 75.0%
4950447 2008.1.1.87 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › YhcG_C 0.67 45.0 4.72e-01 84.8% 72.7%
3274159 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.66 43.0 5.03e-01 86.1% 93.9%
366478 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.65 39.0 4.89e-01 84.8% 98.0%
4939916 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 0.65 28.0 3.68e-01 97.0% 71.1%
5003779 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.65 61.0 5.13e-01 100.0% 77.0%
3249181 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.65 37.0 4.73e-01 79.4% 100.0%
3244571 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.64 36.0 4.69e-01 79.4% 100.0%
164523 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 0.64 33.0 3.78e-01 83.6% 66.9%
4959669 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.63 60.0 5.20e-01 100.0% 81.2%
4628389 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 0.63 32.0 3.70e-01 85.5% 65.8%
4122042 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.63 31.0 3.46e-01 83.0% 57.0%
4930883 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 0.62 30.0 3.59e-01 97.6% 66.4%
4630823 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 0.62 31.0 3.64e-01 97.6% 67.0%
4953680 2008.1.1.4 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Cas_Cas4 0.61 57.0 4.85e-01 100.0% 80.3%
4351693 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 0.61 31.0 3.66e-01 85.5% 68.7%
2599880 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 0.60 31.0 3.55e-01 83.0% 66.7%
4450918 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.59 56.0 4.23e-01 100.0% 52.1%
4031223 2008.1.1.204 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF2800 0.59 54.0 4.70e-01 100.0% 74.8%
3262617 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 39.0 4.64e-01 71.5% 100.0%
4882261 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.58 55.0 4.16e-01 100.0% 56.3%
3821558 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.58 55.0 4.22e-01 100.0% 52.9%
4211146 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.58 53.0 4.02e-01 100.0% 53.2%
3580762 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 48.0 4.14e-01 100.0% 57.4%
3691245 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.57 52.0 4.53e-01 100.0% 77.3%
3244616 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.57 53.0 4.19e-01 100.0% 51.1%
3263633 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.57 53.0 4.08e-01 100.0% 56.6%
3184260 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.57 52.0 3.93e-01 100.0% 53.9%
4020924 2008.1.1.77 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NOV_C 0.57 47.0 4.64e-01 86.7% 84.4%
3617935 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 31.0 3.10e-01 100.0% 50.6%
3393164 2008.1.1.91 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NARG2_C 0.56 51.0 3.90e-01 100.0% 74.5%
3499164 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.56 51.0 4.16e-01 100.0% 58.1%
3235696 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.56 51.0 3.99e-01 100.0% 50.7%
3005282 2008.2.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.56 39.0 4.46e-01 83.6% 95.2%
4081795 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.56 51.0 4.01e-01 100.0% 53.2%
4283253 327.11.1.14 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › PF27311 0.55 37.0 4.27e-01 75.2% 93.3%
4098518 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.55 51.0 3.86e-01 100.0% 50.3%
3930812 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.55 50.0 3.90e-01 100.0% 54.1%
1155793 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 0.55 31.0 3.29e-01 83.6% 61.8%
4014350 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 50.0 3.93e-01 100.0% 54.8%
3936120 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.54 49.0 3.94e-01 100.0% 51.0%
4590621 2008.1.1.27 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAI1 0.54 49.0 3.84e-01 100.0% 52.5%
3929928 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 49.0 3.84e-01 100.0% 55.5%
4990485 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 43.0 4.24e-01 83.6% 80.0%
4973169 7518.1.1.0 a/b three-layered sandwiches › PK C-terminal domain-like › PK C-terminal domain-like › PK C-terminal domain-like 0.54 31.0 3.98e-01 78.8% 96.0%
3170447 2008.6.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains › ACC_central 0.53 42.0 3.66e-01 81.8% 73.5%
4988165 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.53 42.0 4.19e-01 84.2% 81.1%
3201517 2008.6.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains › ACC_central 0.53 42.0 3.60e-01 83.6% 75.8%
2773459 7581.1.1.0 a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like 0.52 29.0 3.25e-01 85.5% 68.3%
3452624 2008.6.1.1 a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains › ACC_central 0.52 41.0 3.54e-01 83.0% 76.2%
5026220 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.50 36.0 3.58e-01 79.4% 69.1%