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NC_004456.1__NP_758905.1__VHMLp12__00012
Bact-VirNC_004456.1__NP_758905.1__VHMLp12__00012
Identity
- Accession:
- NC_004456 ↗
- Kingdom:
- phage
Quality
80.9
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 3-63
Domain cluster:
representative
CATH (17)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1kblA05 | 1.20.80.30 | Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › | 0.69 | 42.0 | 3.72e-01 | 90.2% | 42.7% |
| 1ic8A01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.68 | 46.0 | 4.02e-01 | 70.5% | 88.3% |
| 1rfyB00 | 1.10.287.160 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat | 0.65 | 41.0 | 3.60e-01 | 93.4% | 44.3% |
| 2ib0A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.64 | 50.0 | 3.82e-01 | 83.6% | 71.1% |
| 1rm6B02 | 3.30.390.50 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain | 0.61 | 53.0 | 4.44e-01 | 98.4% | 88.8% |
| 1skvA00 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.60 | 46.0 | 4.58e-01 | 82.0% | 87.5% |
| 3bh0A00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.60 | 47.0 | 3.08e-01 | 86.9% | 21.1% |
| 4lunU00 | 1.25.40.180 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.58 | 50.0 | 3.20e-01 | 96.7% | 26.7% |
| 4it4A02 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.57 | 46.0 | 4.11e-01 | 90.2% | 79.1% |
| 1sumB01 | 1.20.58.220 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 | 0.57 | 48.0 | 4.02e-01 | 93.4% | 80.4% |
| 2y39A00 | 1.20.120.1490 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.56 | 42.0 | 3.50e-01 | 82.0% | 47.3% |
| 3oxfA05 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.55 | 42.0 | 4.00e-01 | 83.6% | 68.0% |
| 2yevA02 | 1.10.287.70 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.55 | 38.0 | 3.58e-01 | 98.4% | 58.1% |
| 1b06A01 | 1.10.287.990 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain | 0.55 | 42.0 | 4.14e-01 | 83.6% | 80.6% |
| 2zgyA02 | 3.30.420.40 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain | 0.54 | 45.0 | 3.54e-01 | 98.4% | 42.1% |
| 7zb5E01 | 3.40.50.10810 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Tandem AAA-ATPase domain | 0.53 | 45.0 | 2.92e-01 | 96.7% | 62.5% |
| 2mtqA00 | 1.20.58.130 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.52 | 44.0 | 4.14e-01 | 93.4% | 87.7% |
ECOD (12)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3668797 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.70 | 62.0 | 3.98e-01 | 96.7% | 42.9% |
| 3740294 | 3826.1.1.0 ↗ | alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) | 0.63 | 46.0 | 3.37e-01 | 77.0% | 32.7% |
| 4214713 | 604.9.1.13 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › GET2 | 0.62 | 52.0 | 4.20e-01 | 95.1% | 84.8% |
| 4089827 | 192.1.1.34 ↗ | alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain › DUF444 | 0.62 | 44.0 | 4.09e-01 | 83.6% | 60.0% |
| 4933701 | 3928.1.1.0 ↗ | alpha bundles › Cell division protein CrgA › Cell division protein CrgA › Cell division protein CrgA | 0.60 | 45.0 | 4.24e-01 | 80.3% | 82.7% |
| 3505608 | 192.29.1.1 ↗ | alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB_dom | 0.60 | 46.0 | 4.26e-01 | 82.0% | 78.7% |
| 5050737 | 225.1.1.3 ↗ | a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c | 0.59 | 44.0 | 2.92e-01 | 80.3% | 21.7% |
| 3930226 | 3748.1.1.0 ↗ | extended segments › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain › 26S proteasome regulatory subunit RPN8/RPN11 C-terminal domain | 0.58 | 44.0 | 4.07e-01 | 83.6% | 88.7% |
| 137748 | 192.6.1.1 ↗ | alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain › ATP-synt_DE | 0.55 | 40.0 | 4.23e-01 | 78.7% | 92.5% |
| 4888545 | 1075.4.1.30 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_tran | 0.55 | 47.0 | 2.97e-01 | 100.0% | 41.2% |
| 4311347 | 604.24.1.0 ↗ | alpha bundles › Spectrin repeat-like › Helical bundle domain in putative transcriptional regulator Jann_0659-related proteins › Helical bundle domain in putative transcriptional regulator Jann_0659-related proteins | 0.53 | 42.0 | 3.88e-01 | 86.9% | 77.5% |
| 3709217 | 574.1.1.1 ↗ | alpha bundles › Surp module (SWAP domain) › Surp module (SWAP domain) › Surp module (SWAP domain) › Surp | 0.50 | 40.0 | 3.91e-01 | 98.4% | 88.6% |
D2
medium
residues 64-118_120-123
Domain cluster:
representative
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2bnlC00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.74 | 51.0 | 3.88e-01 | 72.9% | 35.8% |
| 3gi8C00 | 1.20.1740.10 | Mainly Alpha › Up-down Bundle › Amino acid/polyamine transporter I › Amino acid/polyamine transporter I | 0.73 | 53.0 | 3.16e-01 | 78.0% | 13.3% |
| 3ez0C00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.65 | 56.0 | 3.85e-01 | 96.6% | 65.4% |
| 2gkmA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.59 | 46.0 | 3.63e-01 | 83.1% | 66.1% |
| 2kj5A00 | 1.10.150.130 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain | 0.57 | 44.0 | 3.56e-01 | 84.7% | 58.6% |
| 7zm7601 | 1.20.120.1200 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ | 0.57 | 50.0 | 3.65e-01 | 100.0% | 92.2% |
| 3eoqB02 | 3.30.830.10 | Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like | 0.55 | 43.0 | 3.06e-01 | 84.7% | 61.7% |
| 6xy4A01 | 1.10.437.10 | Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like | 0.54 | 45.0 | 3.51e-01 | 89.8% | 53.7% |
| 1d3yB02 | 3.40.1360.10 | Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › | 0.51 | 39.0 | 2.69e-01 | 84.7% | 47.9% |
ECOD (9)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5016721 | 6132.1.1.14 ↗ | alpha bundles › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain › Nudix hydrolase N-terminal dimerization domain › PF29261 | 0.69 | 45.0 | 4.49e-01 | 74.6% | 65.0% |
| 4939058 | 3457.1.1.3 ↗ | alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Arc_PepC_II | 0.63 | 49.0 | 3.26e-01 | 86.4% | 26.4% |
| 59853 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.62 | 45.0 | 3.05e-01 | 78.0% | 27.3% |
| 4111221 | 3413.1.1.1 ↗ | alpha bundles › Inositol phosphate phosphatase sopB N-terminal domain › Inositol phosphate phosphatase sopB N-terminal domain › Inositol phosphate phosphatase sopB N-terminal domain › IpgD | 0.62 | 49.0 | 4.16e-01 | 88.1% | 55.0% |
| 5031064 | 604.3.1.0 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain | 0.60 | 46.0 | 3.95e-01 | 84.7% | 78.0% |
| 5077283 | 2004.1.1.79 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Thymidylate_kin | 0.59 | 50.0 | 3.46e-01 | 98.3% | 67.4% |
| 1197353 | 109.1.1.6 ↗ | alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_2 | 0.54 | 43.0 | 3.41e-01 | 88.1% | 82.3% |
| 4991215 | 3843.1.1.0 ↗ | alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K | 0.51 | 40.0 | 3.93e-01 | 84.7% | 80.0% |
| 3611163 | 2004.1.1.480 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_21, AAA_29 | 0.51 | 42.0 | 2.55e-01 | 94.9% | 72.6% |