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LacPavin_0818_WC40_scaffold_86355_prodigal-single.1__X__X__00297
Bact-VirLacPavin_0818_WC40_scaffold_86355_prodigal-single.1__X__X__00297
Identity
- Kingdom:
- phage
Quality
83.5
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 209-334
Domain cluster:
rep: IMGVR_UViG_3300025584_000284-3300025584-Ga0209774_100031726__D151-252
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF24308.2 best | DUF7487 | 32.0 | 1.50e-07 | 67.5% | 25.9% |
CATH (39)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1t0fA01 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.79 | 68.0 | 6.18e-01 | 89.7% | 76.5% |
| 3r3pB00 | 3.40.960.10 | Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease | 0.75 | 54.0 | 6.00e-01 | 88.1% | 94.9% |
| 4ga4A02 | 3.40.1030.10 | Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain | 0.65 | 54.0 | 4.27e-01 | 89.7% | 76.6% |
| 4rshA00 | 3.40.50.1110 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase | 0.62 | 55.0 | 4.89e-01 | 95.2% | 98.9% |
| 5awhA01 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.61 | 53.0 | 4.69e-01 | 94.4% | 81.0% |
| 4eadA02 | 3.40.1030.10 | Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain | 0.60 | 50.0 | 4.07e-01 | 89.7% | 72.1% |
| 7kx9A02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.58 | 50.0 | 4.81e-01 | 95.2% | 82.6% |
| 4kyqA00 | 3.90.190.10 | Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily | 0.56 | 43.0 | 3.72e-01 | 100.0% | 49.5% |
| 4bxoA01 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.56 | 48.0 | 4.77e-01 | 95.2% | 91.1% |
| 2d5lA02 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.56 | 49.0 | 3.89e-01 | 96.0% | 99.6% |
| 3lcmB00 | 3.40.50.360 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain | 0.56 | 48.0 | 4.23e-01 | 94.4% | 98.4% |
| 3syyA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.56 | 44.0 | 3.83e-01 | 85.7% | 54.6% |
| 5ck3F00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.55 | 46.0 | 4.39e-01 | 89.7% | 96.6% |
| 3obwA03 | 3.30.1330.30 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 | 0.55 | 35.0 | 3.80e-01 | 75.4% | 76.5% |
| 2zshA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.55 | 49.0 | 3.64e-01 | 100.0% | 86.4% |
| 1g6hA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.55 | 43.0 | 3.46e-01 | 83.3% | 76.4% |
| 4ze8A03 | 3.10.105.10 | Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 | 0.55 | 43.0 | 3.64e-01 | 83.3% | 61.0% |
| 2vf7B01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.55 | 42.0 | 3.19e-01 | 82.5% | 81.1% |
| 4wnyA00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.55 | 39.0 | 3.93e-01 | 74.6% | 79.5% |
| 2mp4A00 | 3.40.20.10 | Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin | 0.55 | 39.0 | 3.61e-01 | 74.6% | 85.5% |
| 2awnD01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.55 | 38.0 | 3.63e-01 | 70.6% | 76.6% |
| 3fcxB00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.54 | 48.0 | 3.80e-01 | 100.0% | 97.5% |
| 1ufoA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.54 | 48.0 | 3.96e-01 | 99.2% | 93.7% |
| 1szpB02 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.54 | 45.0 | 3.76e-01 | 88.1% | 67.3% |
| 1fpzC00 | 3.90.190.10 | Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily | 0.54 | 40.0 | 3.63e-01 | 97.6% | 56.2% |
| 1j24A00 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.53 | 45.0 | 4.49e-01 | 95.2% | 95.5% |
| 3fdxA00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.53 | 37.0 | 3.75e-01 | 72.2% | 94.5% |
| 3qk7A01 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.53 | 46.0 | 4.50e-01 | 95.2% | 88.4% |
| 1qnrA00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.52 | 42.0 | 3.13e-01 | 85.7% | 55.8% |
| 3l0aA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.52 | 44.0 | 3.53e-01 | 94.4% | 55.6% |
| 1sgwA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.52 | 40.0 | 3.52e-01 | 83.3% | 82.0% |
| 2gm3A00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.52 | 37.0 | 3.52e-01 | 73.8% | 73.2% |
| 4oevA03 | 3.10.105.10 | Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 | 0.52 | 39.0 | 3.26e-01 | 79.4% | 61.4% |
| 2a1iA01 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.51 | 43.0 | 4.47e-01 | 96.8% | 99.1% |
| 8b3yA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.51 | 45.0 | 3.41e-01 | 97.6% | 86.1% |
| 8jx6B01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.51 | 40.0 | 3.45e-01 | 83.3% | 64.0% |
| 6ecpB01 | 3.40.50.10860 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 | 0.51 | 40.0 | 3.83e-01 | 90.5% | 72.4% |
| 2gzsA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.51 | 45.0 | 3.65e-01 | 99.2% | 63.5% |
| 2xi5A00 | 3.40.91.60 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.50 | 44.0 | 3.90e-01 | 97.6% | 81.5% |
ECOD (45)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3278307 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.88 | 72.0 | 6.83e-01 | 89.7% | 73.1% |
| 3284171 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.83 | 66.0 | 6.19e-01 | 89.7% | 69.3% |
| 4995705 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.79 | 69.0 | 6.65e-01 | 91.3% | 83.6% |
| 1282261 | 2008.1.1.17 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF559 | 0.75 | 54.0 | 6.02e-01 | 88.1% | 95.9% |
| 4968758 | 2008.1.1.224 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_3 | 0.72 | 49.0 | 5.62e-01 | 82.5% | 92.6% |
| 5051257 | 2007.1.14.35 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › DUF2229 | 0.63 | 57.0 | 5.00e-01 | 100.0% | 86.3% |
| 4956039 | 2007.1.13.1 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Lumazine synthase › DMRL_synthase | 0.62 | 52.0 | 5.05e-01 | 91.3% | 87.1% |
| 3573534 | 2006.1.5.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Arginase/deacetylase | 0.61 | 43.0 | 3.48e-01 | 72.2% | 64.5% |
| 4946571 | 2008.1.1.85 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII | 0.61 | 55.0 | 4.66e-01 | 98.4% | 85.4% |
| 3471167 | 2006.1.6.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like | 0.60 | 49.0 | 3.91e-01 | 89.7% | 85.0% |
| 3895050 | 2008.1.1.7 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 | 0.59 | 52.0 | 4.72e-01 | 95.2% | 77.6% |
| 4288654 | 2008.1.1.7 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 | 0.58 | 51.0 | 4.91e-01 | 95.2% | 91.0% |
| 4996106 | 2008.1.1.7 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 | 0.58 | 51.0 | 4.88e-01 | 94.4% | 84.8% |
| 4945737 | 2008.1.1.7 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 | 0.58 | 50.0 | 4.69e-01 | 94.4% | 81.3% |
| 1293920 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.57 | 44.0 | 4.43e-01 | 81.0% | 83.3% |
| 4997440 | 2005.1.1.3 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp | 0.57 | 40.0 | 4.04e-01 | 72.2% | 70.0% |
| 3174160 | 301.1.1.2 ↗ | a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 | 0.57 | 32.0 | 3.93e-01 | 83.3% | 90.7% |
| 4087871 | 2007.6.1.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain | 0.57 | 49.0 | 4.31e-01 | 94.4% | 65.8% |
| 3506929 | 2005.1.1.36 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › SLC12 | 0.57 | 48.0 | 3.59e-01 | 91.3% | 97.5% |
| 3170340 | 2004.1.1.571 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras, MMR_HSR1 | 0.57 | 49.0 | 4.40e-01 | 95.2% | 96.7% |
| 3476281 | 2005.1.1.3 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp | 0.56 | 38.0 | 3.78e-01 | 88.1% | 66.2% |
| 4278210 | 2007.6.1.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain | 0.56 | 48.0 | 4.35e-01 | 94.4% | 70.9% |
| 3515505 | 2004.1.1.534 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PF30386 | 0.56 | 51.0 | 4.21e-01 | 100.0% | 82.2% |
| 3279399 | 2007.2.1.2 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › Flavodoxin_2 | 0.56 | 48.0 | 4.12e-01 | 95.2% | 90.5% |
| 4108235 | 2007.6.1.3 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Ribosomal protein S2/SIS domain › Ribosomal protein S2/SIS domain › PGI | 0.55 | 50.0 | 3.47e-01 | 100.0% | 72.1% |
| 3987307 | 327.6.1.2 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › FeS_assembly_P | 0.55 | 37.0 | 4.05e-01 | 73.8% | 82.9% |
| 3652829 | 2005.1.1.0 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains | 0.54 | 39.0 | 3.79e-01 | 73.8% | 89.3% |
| 3166100 | 327.14.1.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › C-terminal domain of DNA Polymerase III subunit tau › C-terminal domain of DNA Polymerase III subunit tau › DNA_pol3_tau_5 | 0.54 | 34.0 | 3.31e-01 | 79.4% | 56.5% |
| 4322077 | 2005.1.1.11 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 | 0.54 | 41.0 | 3.44e-01 | 81.7% | 65.3% |
| 3838750 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.54 | 46.0 | 4.48e-01 | 96.8% | 93.8% |
| 4040940 | 2007.1.2.5 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › Bmp | 0.53 | 45.0 | 3.86e-01 | 90.5% | 60.0% |
| 4002527 | 2004.1.1.16 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf | 0.53 | 47.0 | 4.59e-01 | 95.2% | 95.6% |
| 4101672 | 2004.1.1.5 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran | 0.53 | 41.0 | 3.44e-01 | 83.3% | 74.8% |
| 5013671 | 327.11.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) | 0.52 | 35.0 | 4.08e-01 | 78.6% | 98.9% |
| 4382076 | 2004.1.1.146 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase | 0.52 | 43.0 | 3.41e-01 | 88.9% | 67.1% |
| 4483491 | 2004.1.1.73 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 | 0.52 | 44.0 | 3.85e-01 | 95.2% | 84.4% |
| 5075755 | 2484.1.1.124 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 | 0.51 | 38.0 | 3.54e-01 | 77.0% | 88.7% |
| 4249160 | 2006.1.3.6 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 | 0.51 | 44.0 | 4.43e-01 | 96.0% | 95.4% |
| 3912181 | 2004.1.1.174 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Elong_Iki1 | 0.51 | 41.0 | 3.42e-01 | 85.7% | 73.6% |
| 4141794 | 2005.1.1.11 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ATP_bind_3 | 0.51 | 41.0 | 3.35e-01 | 96.8% | 45.4% |
| 5013580 | 2004.1.1.1200 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF835 | 0.51 | 41.0 | 3.92e-01 | 86.5% | 80.7% |
| 3633961 | 2002.1.1.3 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › TIM | 0.51 | 44.0 | 3.57e-01 | 98.4% | 84.9% |
| 3721810 | 7516.1.1.0 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases | 0.51 | 37.0 | 3.04e-01 | 76.2% | 40.9% |
| 4310335 | 316.1.1.44 ↗ | a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Adenyl_cycl_N | 0.50 | 44.0 | 3.73e-01 | 97.6% | 84.1% |
| 402316 | 2008.1.1.65 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › L_protein_N | 0.50 | 44.0 | 3.90e-01 | 97.6% | 82.0% |
D2
medium
residues 2-43
Domain cluster:
representative
ECOD (2)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3246204 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.69 | 56.0 | 5.70e-01 | 97.6% | 95.0% |
| 3562276 | 389.1.1.119 ↗ | few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › BRINP | 0.53 | 39.0 | 3.23e-01 | 92.9% | 83.0% |
D3
medium
residues 91-198
Domain cluster:
representative
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2gv9A05 | 1.10.287.690 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › B family DNA polymerase, finger domain | 0.64 | 32.0 | 4.17e-01 | 73.1% | 86.4% |