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NC_054946.1__YP_010077689.1__KMC38_gp02__00002
Bact-VirNC_054946.1__YP_010077689.1__KMC38_gp02__00002
Identity
- Accession:
- NC_054946 ↗
- Kingdom:
- phage
Quality
56.1
mean pLDDT
Taxonomy
TaxID: 2759710
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
medium
residues 7-118
Domain cluster:
rep: OQ676962.1__WHB31223.1__X__00058__D8-111_212-229
CATH (1)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2yn3B03 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.50 | 21.0 | 2.53e-01 | 96.4% | 54.9% |
D2
medium
residues 119-289
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5t0oA02 | 3.30.70.1430 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain | 0.65 | 39.0 | 4.86e-01 | 80.7% | 97.1% |
| 1p65A00 | 6.10.140.90 | Special › Helix non-globular › Helix Hairpins › | 0.61 | 20.0 | 3.40e-01 | 80.7% | 84.2% |
| 3smzA01 | 3.30.70.330 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain | 0.61 | 34.0 | 4.00e-01 | 70.8% | 78.6% |
| 3onqA02 | 3.30.70.2730 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.61 | 29.0 | 4.06e-01 | 81.9% | 95.1% |
| 4g6vB00 | 3.30.70.2920 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.57 | 35.0 | 4.27e-01 | 94.2% | 99.0% |
| 6lpnA03 | 3.30.70.2190 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.57 | 38.0 | 4.44e-01 | 76.0% | 100.0% |
| 3dkxA01 | 3.40.1310.30 | Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › | 0.56 | 39.0 | 4.32e-01 | 81.9% | 89.6% |
| 1wvfA03 | 3.40.462.10 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain | 0.56 | 43.0 | 3.93e-01 | 80.7% | 81.4% |
| 4n77A00 | 3.30.70.2660 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.54 | 42.0 | 4.05e-01 | 80.7% | 80.5% |
| 1qltA03 | 3.40.462.10 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain | 0.54 | 42.0 | 3.81e-01 | 81.3% | 81.4% |
ECOD (23)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3604598 | 862.1.1.1 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S | 0.63 | 55.0 | 4.61e-01 | 93.0% | 63.6% |
| 5037338 | 862.1.1.1 ↗ | a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S | 0.59 | 51.0 | 4.36e-01 | 91.2% | 67.2% |
| 4669461 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.58 | 45.0 | 3.73e-01 | 81.9% | 82.3% |
| 3697151 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.57 | 44.0 | 3.65e-01 | 80.7% | 68.1% |
| 4619837 | 304.28.1.0 ↗ | a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain | 0.56 | 36.0 | 4.28e-01 | 94.2% | 95.7% |
| 5211 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.56 | 43.0 | 3.69e-01 | 80.7% | 67.4% |
| 4015747 | 304.6.1.0 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain | 0.55 | 42.0 | 3.67e-01 | 80.7% | 74.0% |
| 2714493 | 304.55.1.1 ↗ | a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Gemini_AL1 | 0.55 | 35.0 | 4.08e-01 | 81.9% | 92.2% |
| 4506614 | 304.12.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 | 0.54 | 33.0 | 4.03e-01 | 70.8% | 94.5% |
| 4201083 | 304.12.1.1 ↗ | a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 | 0.54 | 32.0 | 3.98e-01 | 83.0% | 97.0% |
| 4997285 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.54 | 41.0 | 3.63e-01 | 79.5% | 64.8% |
| 4936727 | 304.3.1.4 ↗ | a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › MCR_D | 0.54 | 36.0 | 4.20e-01 | 79.5% | 100.0% |
| 4933229 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.54 | 41.0 | 3.66e-01 | 80.1% | 65.0% |
| 3736643 | 304.4.1.0 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel | 0.53 | 34.0 | 4.07e-01 | 81.9% | 98.2% |
| 5037411 | 304.22.1.0 ↗ | a+b two layers › Alpha-beta plaits › Urease metallochaperone UreE, C-terminal domain › Urease metallochaperone UreE, C-terminal domain | 0.53 | 32.0 | 3.92e-01 | 79.5% | 99.0% |
| 3723303 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.53 | 40.0 | 3.53e-01 | 79.5% | 63.9% |
| 4980941 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.52 | 40.0 | 3.54e-01 | 80.1% | 65.6% |
| 5070190 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.52 | 40.0 | 3.55e-01 | 80.1% | 65.7% |
| 4980299 | 304.6.1.0 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain | 0.52 | 40.0 | 3.52e-01 | 80.1% | 64.4% |
| 3618884 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.51 | 39.0 | 3.50e-01 | 80.1% | 65.7% |
| 3386042 | 304.6.1.1 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › FAD-oxidase_C | 0.51 | 39.0 | 3.49e-01 | 80.1% | 64.5% |
| 3389865 | 2004.1.1.17 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Myosin_head | 0.51 | 38.0 | 2.52e-01 | 78.4% | 31.7% |
| 3599309 | 304.6.1.0 ↗ | a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain | 0.50 | 38.0 | 3.43e-01 | 80.1% | 65.6% |
D3
medium
residues 335-417
Domain cluster:
representative
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3lifA02 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.59 | 38.0 | 3.73e-01 | 85.5% | 58.9% |
| 1khiA01 | 2.30.30.30 | Mainly Beta › Roll › SH3 type barrels. › | 0.58 | 38.0 | 4.01e-01 | 91.6% | 74.7% |
| 2e87A02 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.56 | 38.0 | 2.91e-01 | 100.0% | 29.7% |
| 1k07A00 | 3.60.15.10 | Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like | 0.55 | 47.0 | 3.38e-01 | 97.6% | 75.2% |
| 1a5yA00 | 3.90.190.10 | Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily | 0.55 | 44.0 | 3.07e-01 | 100.0% | 25.7% |
| 2zbbA02 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.55 | 36.0 | 3.71e-01 | 85.5% | 70.4% |
| 3qcmA00 | 3.90.190.10 | Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily | 0.54 | 42.0 | 2.88e-01 | 100.0% | 24.1% |
| 2nwvA00 | 3.30.310.110 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like | 0.53 | 37.0 | 3.38e-01 | 72.3% | 78.6% |
| 3mcrA00 | 3.30.460.80 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit | 0.53 | 42.0 | 3.46e-01 | 100.0% | 47.4% |
| 4exoA00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.52 | 40.0 | 3.46e-01 | 86.7% | 50.0% |
| 1sxjH01 | 3.10.150.10 | Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 | 0.52 | 42.0 | 3.76e-01 | 89.2% | 89.5% |
| 2nlvA00 | 3.30.310.110 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › XisI-like | 0.52 | 36.0 | 3.31e-01 | 72.3% | 58.9% |
| 4b63A00 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.52 | 46.0 | 2.92e-01 | 100.0% | 97.6% |
| 3pnrA00 | 3.90.70.10 | Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases | 0.52 | 39.0 | 2.84e-01 | 80.7% | 87.9% |
| 4hetA01 | 2.60.40.2340 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.51 | 41.0 | 3.99e-01 | 100.0% | 76.6% |
| 3hi2B00 | 3.30.2310.40 | Alpha Beta › 2-Layer Sandwich › YaeB-like fold › | 0.51 | 41.0 | 3.95e-01 | 97.6% | 74.2% |
| 4ywzB00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.51 | 39.0 | 3.28e-01 | 89.2% | 47.3% |
| 2l89A00 | 2.30.30.140 | Mainly Beta › Roll › SH3 type barrels. › | 0.51 | 35.0 | 3.25e-01 | 88.0% | 55.6% |
| 7arcC01 | 3.30.460.80 | Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit | 0.50 | 43.0 | 3.65e-01 | 98.8% | 57.8% |
ECOD (37)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3456692 | 386.1.1.4 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED | 0.70 | 37.0 | 4.32e-01 | 90.4% | 72.9% |
| 3958863 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.64 | 42.0 | 4.12e-01 | 100.0% | 62.5% |
| 5029286 | 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 | 0.63 | 42.0 | 3.12e-01 | 100.0% | 27.3% |
| 3970718 | 3675.1.1.0 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain | 0.60 | 54.0 | 4.46e-01 | 100.0% | 57.3% |
| 4160593 | 3675.1.1.1 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert | 0.60 | 53.0 | 4.26e-01 | 100.0% | 50.9% |
| 4429847 | 3675.1.1.1 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert | 0.59 | 54.0 | 4.27e-01 | 100.0% | 52.1% |
| 4348096 | 3675.1.1.1 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert | 0.59 | 52.0 | 4.20e-01 | 100.0% | 50.9% |
| 4639471 | 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 | 0.58 | 38.0 | 3.02e-01 | 100.0% | 32.0% |
| 3222713 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.58 | 40.0 | 3.73e-01 | 71.1% | 66.0% |
| 3415950 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.57 | 35.0 | 3.35e-01 | 91.6% | 52.6% |
| 3583473 | 2007.2.3.1 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase | 0.56 | 45.0 | 3.02e-01 | 100.0% | 22.5% |
| 4129336 | 3675.1.1.0 ↗ | a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain | 0.56 | 46.0 | 3.83e-01 | 100.0% | 50.7% |
| 3935924 | 2007.2.3.1 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase | 0.55 | 42.0 | 2.85e-01 | 100.0% | 21.6% |
| 4976813 | 2492.1.1.0 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like | 0.55 | 42.0 | 3.46e-01 | 81.9% | 65.3% |
| 3223608 | 2004.1.1.534 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › PF30386 | 0.54 | 39.0 | 2.91e-01 | 75.9% | 46.7% |
| 3625308 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.54 | 39.0 | 3.40e-01 | 74.7% | 52.8% |
| 3919645 | 5.1.4.13 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › FG-GAP | 0.53 | 47.0 | 2.99e-01 | 100.0% | 86.0% |
| 3624597 | 214.1.1.9 ↗ | a+b two layers › SH2 › SH2 › SH2 › DUF7063 | 0.53 | 40.0 | 3.80e-01 | 80.7% | 81.0% |
| 3220873 | 214.1.1.9 ↗ | a+b two layers › SH2 › SH2 › SH2 › DUF7063 | 0.53 | 40.0 | 3.81e-01 | 80.7% | 82.0% |
| 3219283 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.53 | 40.0 | 3.70e-01 | 81.9% | 78.2% |
| 4018245 | 1.1.1.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp | 0.53 | 42.0 | 2.98e-01 | 89.2% | 94.7% |
| 3857749 | 316.1.1.20 ↗ | a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › OAS1_C | 0.53 | 43.0 | 3.26e-01 | 90.4% | 77.6% |
| 4223833 | 79.1.1.13 ↗ | beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Gp5_trimer_C | 0.53 | 28.0 | 2.25e-01 | 89.2% | 25.3% |
| 4596147 | 79.1.1.13 ↗ | beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Gp5_trimer_C | 0.53 | 28.0 | 2.54e-01 | 89.2% | 37.4% |
| 5028187 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.52 | 40.0 | 3.55e-01 | 84.3% | 60.0% |
| 4663920 | 79.1.1.13 ↗ | beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Gp5_trimer_C | 0.52 | 28.0 | 2.54e-01 | 89.2% | 37.4% |
| 3999963 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.52 | 39.0 | 3.38e-01 | 79.5% | 62.3% |
| 3235708 | 214.1.1.0 ↗ | a+b two layers › SH2 › SH2 › SH2 | 0.52 | 39.0 | 3.72e-01 | 80.7% | 81.0% |
| 3624211 | 844.1.1.0 ↗ | beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain | 0.52 | 46.0 | 3.71e-01 | 100.0% | 80.0% |
| 3879132 | 4.1.1.54 ↗ | beta barrels › SH3 › SH3 › SH3 › SH3_2 | 0.52 | 33.0 | 3.44e-01 | 91.6% | 70.7% |
| 3719460 | 101.1.12.0 ↗ | alpha arrays › HTH › HTH › HTH motif inserted in other structures | 0.52 | 43.0 | 3.68e-01 | 90.4% | 92.3% |
| 5077927 | 316.1.1.0 ↗ | a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase | 0.52 | 45.0 | 3.69e-01 | 98.8% | 81.3% |
| 3496419 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.51 | 37.0 | 2.14e-01 | 75.9% | 35.2% |
| 3928536 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.51 | 36.0 | 3.68e-01 | 100.0% | 78.8% |
| 3218472 | 214.1.1.1 ↗ | a+b two layers › SH2 › SH2 › SH2 › SH2 | 0.51 | 39.0 | 3.43e-01 | 83.1% | 60.8% |
| 3645007 | 5.1.10.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed | 0.50 | 39.0 | 3.95e-01 | 84.3% | 98.8% |
| 2511871 | 2492.1.1.26 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › MPN_2A_DUB_like | 0.50 | 43.0 | 3.43e-01 | 98.8% | 91.1% |
D4
medium
residues 418-467_505-545