←Back to structures
NC_028744.1__YP_009193700.1__SEA_LADYBIRD_73__00072
Bact-VirNC_028744.1__YP_009193700.1__SEA_LADYBIRD_73__00072
Identity
- Accession:
- NC_028744 ↗
- Kingdom:
- phage
Quality
78.0
mean pLDDT
Taxonomy
TaxID: 1718166
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 3-38
Domain cluster:
representative
CATH (32)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3fxdB00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.89 | 78.0 | 6.66e-01 | 100.0% | 81.0% |
| 1nt2B02 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.89 | 77.0 | 6.29e-01 | 100.0% | 56.7% |
| 3fnbA01 | 1.20.1440.110 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase | 0.86 | 75.0 | 5.20e-01 | 100.0% | 33.3% |
| 5nohA00 | 1.20.120.1350 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain | 0.84 | 72.0 | 5.18e-01 | 100.0% | 35.0% |
| 5bz1A00 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.83 | 66.0 | 3.75e-01 | 94.4% | 8.9% |
| 2kkmA01 | 1.20.1440.170 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Translation machinery-associated protein 16-like | 0.82 | 69.0 | 4.78e-01 | 100.0% | 34.4% |
| 4gczA03 | 1.10.287.130 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain | 0.82 | 68.0 | 5.73e-01 | 100.0% | 73.8% |
| 7lvzA01 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.81 | 63.0 | 3.83e-01 | 97.2% | 14.3% |
| 2b5dX01 | 3.20.110.10 | Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain | 0.80 | 66.0 | 3.74e-01 | 100.0% | 9.2% |
| 2clbA01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.80 | 65.0 | 4.30e-01 | 100.0% | 23.3% |
| 2mpkA00 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.79 | 63.0 | 5.15e-01 | 100.0% | 47.3% |
| 4cpgA00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.78 | 67.0 | 5.46e-01 | 100.0% | 52.2% |
| 5je8B02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.78 | 65.0 | 4.50e-01 | 100.0% | 28.1% |
| 3h36A00 | 1.10.10.400 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Polyribonucleotide nucleotidyltransferase, RNA-binding domain | 0.77 | 61.0 | 4.87e-01 | 100.0% | 43.6% |
| 5ejrA01 | 1.25.40.530 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › MyTH4 domain | 0.73 | 58.0 | 3.74e-01 | 100.0% | 38.3% |
| 8b9zK01 | 1.10.287.3510 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.73 | 62.0 | 4.67e-01 | 100.0% | 47.3% |
| 1kxpD04 | 1.10.246.10 | Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › | 0.72 | 59.0 | 4.76e-01 | 100.0% | 46.8% |
| 2waqQ00 | 6.20.450.10 | Special › Other non-globular › DNA Excision Repair, Uvrb; Chain A › | 0.71 | 54.0 | 5.21e-01 | 100.0% | 75.6% |
| 2ycdA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.70 | 53.0 | 3.92e-01 | 100.0% | 31.6% |
| 3k3wB03 | 1.10.1400.10 | Mainly Alpha › Orthogonal Bundle › Penicillin amidase (Acylase) alpha subunit, N-terminal domain › Aminohydrolase, alpha-helical knob region | 0.69 | 51.0 | 3.45e-01 | 94.4% | 20.1% |
| 3nkuA00 | 1.10.357.170 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › | 0.69 | 57.0 | 3.66e-01 | 94.4% | 19.9% |
| 3aleA02 | 3.40.47.10 | Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase | 0.69 | 51.0 | 3.34e-01 | 83.3% | 20.3% |
| 3f2eA00 | 1.20.58.800 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.68 | 55.0 | 4.40e-01 | 100.0% | 43.4% |
| 5ywwA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.68 | 53.0 | 3.95e-01 | 100.0% | 32.2% |
| 3k6tB00 | 1.20.5.4010 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.66 | 52.0 | 4.88e-01 | 100.0% | 71.4% |
| 5mrvA00 | 3.40.630.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases | 0.66 | 56.0 | 3.30e-01 | 100.0% | 30.6% |
| 3tp3A02 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.65 | 56.0 | 3.73e-01 | 100.0% | 33.1% |
| 1uajA02 | 1.10.1270.20 | Mainly Alpha › Orthogonal Bundle › Trp Operon Repressor; Chain A › tRNA(m1g37)methyltransferase, domain 2 | 0.65 | 54.0 | 4.31e-01 | 94.4% | 58.9% |
| 5jrcA00 | 1.20.58.2140 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.64 | 47.0 | 3.18e-01 | 100.0% | 19.4% |
| 3mgdB00 | 3.40.630.30 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) | 0.64 | 53.0 | 3.58e-01 | 100.0% | 44.7% |
| 2ndpA00 | 4.10.520.10 | Few Secondary Structures › Irregular › HU Protein; Chain A › IHF-like DNA-binding proteins | 0.55 | 43.0 | 3.23e-01 | 91.7% | 34.3% |
| 1crnA00 | 3.30.1350.10 | Alpha Beta › 2-Layer Sandwich › Crambin › Thionin-like | 0.53 | 42.0 | 3.97e-01 | 94.4% | 87.0% |
ECOD (36)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3794795 | 603.1.1.3 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins › V-SNARE | 0.91 | 81.0 | 5.76e-01 | 100.0% | 36.0% |
| 3472169 | 4163.1.1.1 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 | 0.91 | 80.0 | 5.14e-01 | 100.0% | 23.2% |
| 3495960 | 220.1.1.0 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like | 0.90 | 79.0 | 4.92e-01 | 100.0% | 20.0% |
| 5041863 | 4163.1.1.0 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like | 0.89 | 77.0 | 5.30e-01 | 100.0% | 30.0% |
| 3576943 | 11.12.1.2 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD,Neur_chan_memb | 0.89 | 79.0 | 4.58e-01 | 100.0% | 12.9% |
| 5082565 | 605.1.1.0 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase | 0.89 | 77.0 | 6.18e-01 | 100.0% | 52.9% |
| 4590389 | 4163.1.1.1 ↗ | alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 | 0.89 | 77.0 | 4.98e-01 | 100.0% | 23.2% |
| 3348106 | 5076.2.1.10 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 | 0.89 | 77.0 | 4.52e-01 | 100.0% | 13.3% |
| 3489979 | 220.1.1.1 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH | 0.88 | 75.0 | 4.62e-01 | 100.0% | 17.6% |
| 4202466 | 192.6.1.0 ↗ | alpha bundles › Long alpha-hairpin › Epsilon subunit of F1F0-ATP synthase C-terminal domain › Epsilon subunit of F1F0-ATP synthase C-terminal domain | 0.88 | 75.0 | 7.04e-01 | 100.0% | 80.0% |
| 3224003 | 9001.1.1.3 ↗ | alpha bundles › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TMEM120/ELO/TLC › TMPIT | 0.88 | 74.0 | 5.79e-01 | 100.0% | 45.0% |
| 3931593 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.87 | 74.0 | 5.78e-01 | 100.0% | 45.0% |
| 3346803 | 5076.2.1.10 ↗ | alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 | 0.87 | 75.0 | 4.32e-01 | 100.0% | 11.8% |
| 4300120 | 605.1.1.108 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › GrpE | 0.87 | 74.0 | 6.53e-01 | 100.0% | 65.5% |
| 4536765 | 605.1.1.108 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › GrpE | 0.86 | 74.0 | 5.37e-01 | 100.0% | 36.0% |
| 3622515 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.86 | 72.0 | 5.54e-01 | 100.0% | 42.4% |
| 4951260 | 601.14.1.1 ↗ | alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin | 0.86 | 70.0 | 4.75e-01 | 100.0% | 25.7% |
| 3519300 | 1147.1.1.1 ↗ | alpha bundles › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › RNA polymerase II elongation factor ELL2 C-terminal domain › Occludin_ELL | 0.86 | 72.0 | 5.03e-01 | 100.0% | 30.0% |
| None | — | 0.86 | 73.0 | 4.49e-01 | 100.0% | 17.1% | |
| 4972401 | 2484.1.1.124 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 | 0.85 | 71.0 | 4.37e-01 | 100.0% | 16.7% |
| 3722750 | 4121.1.1.0 ↗ | a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like | 0.85 | 68.0 | 3.91e-01 | 100.0% | 10.3% |
| 4591170 | 109.4.1.210 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_19 | 0.85 | 72.0 | 4.38e-01 | 100.0% | 16.0% |
| 3219691 | 604.12.1.1 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT | 0.84 | 70.0 | 5.77e-01 | 100.0% | 54.3% |
| 4485576 | 1.1.17.4 ↗ | beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Peptidase_S64 | 0.84 | 70.0 | 4.13e-01 | 100.0% | 12.4% |
| 5051266 | 2484.1.1.302 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB | 0.83 | 69.0 | 4.22e-01 | 100.0% | 16.0% |
| 3913004 | 3729.1.1.2 ↗ | alpha arrays › Legumain prodomain › Legumain prodomain › Legumain prodomain › MREG | 0.83 | 69.0 | 4.56e-01 | 100.0% | 23.2% |
| 5017725 | 2484.1.1.302 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB | 0.82 | 66.0 | 4.21e-01 | 100.0% | 18.5% |
| 4213046 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.81 | 65.0 | 5.57e-01 | 100.0% | 55.4% |
| 4000107 | 3567.1.1.122 ↗ | a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer › BAR | 0.79 | 66.0 | 4.33e-01 | 100.0% | 45.6% |
| 3711370 | 3004.1.1.0 ↗ | alpha bundles › Hypothetical protein YfhH, N-terminal domain › Hypothetical protein YfhH, N-terminal domain › Hypothetical protein YfhH, N-terminal domain | 0.79 | 62.0 | 5.90e-01 | 100.0% | 73.3% |
| 5058104 | 2011.2.1.0 ↗ | a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like | 0.78 | 62.0 | 3.61e-01 | 94.4% | 10.0% |
| 5037419 | 3636.1.1.0 ↗ | a+b two layers › XPD arch domain › XPD arch domain › XPD arch domain | 0.78 | 62.0 | 4.34e-01 | 100.0% | 26.7% |
| 3311542 | 138.1.1.11 ↗ | alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › RFC_C | 0.78 | 62.0 | 5.23e-01 | 100.0% | 53.3% |
| 4068275 | 5065.1.1.3 ↗ | alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › BPD_transp_2 | 0.75 | 58.0 | 3.40e-01 | 86.1% | 11.0% |
| 3187306 | 4970.1.1.12 ↗ | alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › GATA_AreA | 0.73 | 57.0 | 5.35e-01 | 100.0% | 71.1% |
| 3960717 | 191.1.1.42 ↗ | alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_41 | 0.72 | 56.0 | 4.49e-01 | 100.0% | 42.7% |