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KC581799.1__AGF89778.1__phiD12_0050__00050
Bact-VirKC581799.1__AGF89778.1__phiD12_0050__00050
Identity
- Accession:
- KC581799 ↗
- Kingdom:
- phage
Quality
85.9
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 4-112_163-242
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2cfuA02 | 1.25.40.880 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Alkyl sulfatase, dimerisation domain | 0.52 | 24.0 | 2.75e-01 | 84.7% | 53.9% |
| 4c0zA02 | 1.10.150.480 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.52 | 25.0 | 3.28e-01 | 98.4% | 84.4% |
ECOD (3)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3963704 | 109.4.1.206 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › YfiO | 0.55 | 35.0 | 3.79e-01 | 94.2% | 75.5% |
| 4032059 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.53 | 29.0 | 3.42e-01 | 93.7% | 76.0% |
| 5020412 | 601.4.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains | 0.51 | 27.0 | 3.60e-01 | 96.3% | 92.4% |
D2
high
residues 119-153
Domain cluster:
representative
CATH (7)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u5tB02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.60 | 42.0 | 3.70e-01 | 88.6% | 92.8% |
| 2co5A00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.56 | 40.0 | 3.21e-01 | 88.6% | 68.5% |
| 3eujB00 | 1.10.225.40 | Mainly Alpha › Orthogonal Bundle › NK-Lysin › MukF, C-terminal domain | 0.56 | 40.0 | 3.25e-01 | 88.6% | 82.2% |
| 1w4tA02 | 2.40.128.150 | Mainly Beta › Beta Barrel › Lipocalin › Cysteine proteinases | 0.55 | 42.0 | 3.24e-01 | 97.1% | 89.9% |
| 4gv2A02 | 3.90.228.10 | Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › | 0.53 | 42.0 | 2.69e-01 | 100.0% | 53.8% |
| 4kkiA02 | 2.170.130.30 | Mainly Beta › Beta Complex › Ferric Hydroxamate Uptake Protein; Chain A, domain 1 › | 0.51 | 37.0 | 2.78e-01 | 82.9% | 85.6% |
| 2e9yB00 | 3.40.1160.10 | Alpha Beta › 3-Layer(aba) Sandwich › Carbamate kinase › Acetylglutamate kinase-like | 0.51 | 35.0 | 2.13e-01 | 80.0% | 33.0% |
ECOD (5)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3684912 | 1017.1.1.1 ↗ | a+b two layers › Rrs1 › Rrs1 › Rrs1 › RRS1 | 0.68 | 53.0 | 4.21e-01 | 91.4% | 81.2% |
| 3616699 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.66 | 48.0 | 4.02e-01 | 85.7% | 88.6% |
| 3163669 | 4156.1.1.4 ↗ | alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C | 0.57 | 42.0 | 2.70e-01 | 88.6% | 24.5% |
| 3426986 | 101.1.2.503 ↗ | alpha arrays › HTH › HTH › winged helix domain › PF25875 | 0.54 | 38.0 | 3.42e-01 | 88.6% | 89.2% |
| 3192626 | 109.4.1.1243 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Mrp13 | 0.51 | 36.0 | 2.18e-01 | 85.7% | 40.3% |
D3
high
residues 245-428
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF09563.17 best | RE_LlaJI | 52.2 | 7.90e-14 | 72.3% | 32.6% |
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3fovA00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.68 | 38.0 | 5.03e-01 | 75.0% | 100.0% |
| 1ob8A00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.66 | 42.0 | 5.09e-01 | 95.7% | 97.5% |
| 6p4wB01 | 3.40.91.30 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.60 | 36.0 | 4.58e-01 | 94.6% | 100.0% |
| 2p14A00 | 3.40.91.50 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.60 | 50.0 | 5.05e-01 | 100.0% | 86.0% |
| 3syyA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.60 | 38.0 | 3.79e-01 | 75.0% | 59.3% |
| 1isiA02 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.56 | 34.0 | 3.92e-01 | 86.4% | 83.6% |
| 2xi5A00 | 3.40.91.60 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.56 | 38.0 | 3.80e-01 | 85.9% | 67.4% |
| 3s28A03 | 3.40.50.2000 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; | 0.55 | 38.0 | 3.20e-01 | 83.2% | 42.2% |
| 1rznA00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.54 | 42.0 | 4.60e-01 | 96.2% | 100.0% |
| 1jmvA00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.54 | 31.0 | 3.52e-01 | 70.7% | 72.9% |
| 4g0mA00 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.53 | 36.0 | 4.02e-01 | 97.8% | 90.4% |
| 2f9sB00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.52 | 29.0 | 3.29e-01 | 85.3% | 69.9% |
| 3k93A00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.52 | 38.0 | 3.61e-01 | 75.5% | 62.3% |
ECOD (47)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5016554 | 2008.1.1.51 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › McrBC | 0.74 | 54.0 | 5.96e-01 | 92.4% | 91.3% |
| 4975459 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.70 | 51.0 | 5.58e-01 | 97.8% | 89.7% |
| 4979146 | 2008.1.1.107 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD | 0.70 | 51.0 | 5.49e-01 | 99.5% | 86.9% |
| 4998336 | 2008.1.1.107 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD | 0.69 | 51.0 | 5.66e-01 | 99.5% | 95.2% |
| 4945329 | 2008.1.1.107 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD | 0.69 | 51.0 | 4.88e-01 | 99.5% | 65.6% |
| 4941691 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.69 | 49.0 | 5.30e-01 | 99.5% | 86.4% |
| 4983302 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.69 | 48.0 | 5.39e-01 | 96.2% | 92.1% |
| 4066769 | 2008.1.1.6 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 | 0.68 | 40.0 | 5.12e-01 | 97.3% | 99.1% |
| 5009639 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.68 | 43.0 | 3.42e-01 | 84.2% | 33.0% |
| 5073133 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.68 | 50.0 | 5.50e-01 | 99.5% | 92.7% |
| 4141864 | 2008.1.1.6 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 | 0.68 | 43.0 | 5.20e-01 | 97.3% | 96.6% |
| 3838596 | 2008.1.1.85 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII | 0.67 | 48.0 | 4.69e-01 | 94.6% | 65.9% |
| 4946571 | 2008.1.1.85 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII | 0.67 | 50.0 | 4.80e-01 | 87.0% | 68.3% |
| 4394279 | 2008.1.1.6 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 | 0.66 | 41.0 | 4.97e-01 | 97.3% | 93.3% |
| 5053235 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.66 | 43.0 | 3.91e-01 | 75.5% | 49.0% |
| 5044802 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.66 | 49.0 | 4.74e-01 | 97.8% | 67.6% |
| 3588071 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.66 | 43.0 | 4.59e-01 | 78.8% | 74.4% |
| 4940511 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.66 | 56.0 | 5.19e-01 | 100.0% | 72.2% |
| 4970960 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.65 | 49.0 | 5.29e-01 | 99.5% | 92.3% |
| 4459358 | 2008.1.1.6 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 | 0.65 | 40.0 | 4.87e-01 | 99.5% | 94.2% |
| 4943737 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.64 | 42.0 | 4.46e-01 | 78.8% | 74.4% |
| 4993589 | 2498.1.1.0 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" | 0.64 | 39.0 | 4.26e-01 | 98.4% | 72.7% |
| 5053352 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.64 | 52.0 | 5.51e-01 | 99.5% | 96.9% |
| 3506045 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.62 | 37.0 | 3.75e-01 | 96.7% | 57.8% |
| 3509755 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.62 | 43.0 | 4.74e-01 | 86.4% | 86.7% |
| 1144868 | 2008.1.1.66 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ArenaCapSnatch | 0.61 | 36.0 | 3.82e-01 | 85.9% | 63.3% |
| 4946872 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.61 | 49.0 | 5.11e-01 | 94.6% | 92.7% |
| 4373997 | 2008.1.1.44 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › FokI_cleav_dom | 0.60 | 50.0 | 4.90e-01 | 96.7% | 80.5% |
| 4411889 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.58 | 41.0 | 3.89e-01 | 85.9% | 60.0% |
| 3273870 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.58 | 44.0 | 4.24e-01 | 85.3% | 68.1% |
| 5032419 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.58 | 48.0 | 4.70e-01 | 100.0% | 80.0% |
| 2116981 | 2008.1.1.66 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ArenaCapSnatch | 0.58 | 35.0 | 3.51e-01 | 85.9% | 57.2% |
| 4097525 | 2498.1.1.22 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › YbeY | 0.57 | 37.0 | 4.07e-01 | 99.5% | 79.3% |
| 3613203 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.55 | 46.0 | 4.53e-01 | 88.0% | 96.0% |
| 185523 | 7512.1.1.5 ↗ | a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Sucrose_synth | 0.55 | 38.0 | 3.42e-01 | 83.7% | 50.6% |
| 3335973 | 7512.1.1.5 ↗ | a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Sucrose_synth | 0.55 | 39.0 | 3.36e-01 | 84.2% | 47.3% |
| 3579136 | 2496.1.1.0 ↗ | a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like | 0.53 | 34.0 | 4.05e-01 | 82.6% | 95.2% |
| 4607429 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.53 | 40.0 | 3.58e-01 | 78.8% | 66.5% |
| 4310493 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.53 | 41.0 | 3.69e-01 | 79.9% | 64.5% |
| 4409039 | 2008.1.1.207 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_7 | 0.53 | 47.0 | 4.47e-01 | 97.3% | 92.3% |
| 4676615 | 2008.1.1.85 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RE_TdeIII | 0.53 | 46.0 | 4.00e-01 | 92.9% | 65.8% |
| 4060254 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.53 | 40.0 | 3.60e-01 | 78.8% | 63.2% |
| 3386658 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.52 | 39.0 | 4.03e-01 | 79.9% | 80.6% |
| 3979018 | 2008.1.1.14 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Vsr | 0.52 | 38.0 | 4.16e-01 | 98.9% | 92.0% |
| None | — | 0.51 | 39.0 | 2.38e-01 | 79.3% | 12.9% | |
| 4096358 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.51 | 39.0 | 3.86e-01 | 79.9% | 79.0% |
| 4497527 | 2008.1.1.59 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 | 0.51 | 39.0 | 3.53e-01 | 79.3% | 68.3% |