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OR159674.1__WKW87040.1__SEA_NICOLE72_3__00003

Bact-Vir

OR159674.1__WKW87040.1__SEA_NICOLE72_3__00003

Identity

Accession:
OR159674 ↗
Kingdom:
phage

Quality

81.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Hodgkinviridae› Meganvirus› Microbacterium_phage_Nicole72

TaxID: 3062838

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 10-58
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3er0A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.64 46.0 4.06e-01 77.6% 93.2%
2pn1A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.63 46.0 3.54e-01 81.6% 68.3%
3jtzA00 3.30.160.390 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain 0.61 49.0 4.39e-01 100.0% 62.3%
2n3gA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 48.0 4.34e-01 100.0% 62.5%
3tw8A01 3.30.450.200 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Longin module 0.59 46.0 3.59e-01 100.0% 36.2%
2xp1A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 49.0 4.08e-01 100.0% 55.8%
5i47B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 42.0 3.46e-01 79.6% 73.7%
1zc3B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 43.0 3.47e-01 100.0% 37.6%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.57 43.0 3.09e-01 89.8% 39.7%
6pxcA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 47.0 3.85e-01 100.0% 56.7%
5eb9A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 40.0 3.11e-01 73.5% 69.6%
2ci9B00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.56 46.0 3.82e-01 100.0% 68.0%
6mzoA01 3.40.50.11970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 44.0 3.45e-01 100.0% 39.7%
1uc8A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.55 42.0 3.47e-01 85.7% 72.3%
2rqlA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.55 46.0 3.82e-01 100.0% 54.7%
3q9oA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 44.0 3.00e-01 100.0% 35.6%
4clfA02 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.53 39.0 2.75e-01 85.7% 44.6%
2w01B00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.53 41.0 2.94e-01 100.0% 88.3%
1d5aA01 3.30.342.10 Alpha Beta › 2-Layer Sandwich › DNA Polymerase; Chain A, domain 1 › DNA Polymerase, chain B, domain 1 0.52 41.0 3.11e-01 95.9% 83.4%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 40.0 3.21e-01 93.9% 38.0%
5o5iA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 37.0 3.08e-01 75.5% 60.9%
5dstA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.52 42.0 3.01e-01 100.0% 76.8%
2o95B00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.51 39.0 2.79e-01 89.8% 52.8%
2ywqA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.51 42.0 3.60e-01 100.0% 62.5%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 38.0 3.06e-01 93.9% 39.5%
7szeB01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.50 40.0 3.30e-01 100.0% 55.1%
3pubA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.50 36.0 2.64e-01 81.6% 37.9%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3518948 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.64 45.0 3.82e-01 98.0% 43.5%
5029914 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.63 53.0 5.21e-01 100.0% 92.7%
3456246 330.1.1.19 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.61 54.0 4.46e-01 100.0% 64.4%
3245175 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.61 49.0 4.08e-01 100.0% 48.4%
4946414 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.61 51.0 3.89e-01 100.0% 48.0%
3585171 330.1.1.5 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.60 49.0 4.17e-01 100.0% 54.1%
3663237 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.60 54.0 4.57e-01 100.0% 68.8%
3409973 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.60 47.0 4.26e-01 100.0% 61.3%
3967506 300.1.1.8 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › PLDc_2 0.60 39.0 2.55e-01 100.0% 13.8%
3514681 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.59 45.0 4.35e-01 95.9% 75.0%
3387410 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 42.0 3.36e-01 81.6% 76.5%
4391625 330.6.1.1 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.58 49.0 3.90e-01 100.0% 97.3%
3619859 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.58 47.0 3.69e-01 100.0% 83.3%
3297981 252.1.1.1 ↗ a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD › MBD 0.57 48.0 4.63e-01 98.0% 83.6%
4550200 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.57 47.0 3.76e-01 100.0% 59.1%
3913474 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.57 40.0 2.98e-01 73.5% 60.0%
3886889 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.57 39.0 3.71e-01 73.5% 95.0%
3965319 330.6.1.1 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.56 47.0 3.61e-01 100.0% 40.9%
4659972 2003.1.2.56 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NAD_binding_9 0.55 39.0 2.31e-01 87.8% 8.7%
4946882 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.55 40.0 3.87e-01 81.6% 69.1%
4656422 2003.1.3.23 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › NAD_binding_9 0.55 38.0 2.28e-01 87.8% 8.5%
4546371 220.1.1.219 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › CheF-arch 0.54 45.0 3.44e-01 95.9% 64.2%
3889864 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 37.0 3.68e-01 75.5% 90.9%
4117325 330.6.1.1 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.54 44.0 3.36e-01 100.0% 36.9%
4150182 7541.1.1.1 ↗ a/b three-layered sandwiches › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › MoCF_biosynth 0.53 42.0 3.00e-01 93.9% 91.7%
3479055 193.1.1.0 ↗ alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like 0.53 36.0 2.72e-01 75.5% 99.4%
5051954 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 41.0 3.59e-01 100.0% 56.2%
4108476 2484.1.1.10 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › TsaD 0.52 41.0 3.39e-01 100.0% 42.7%
4988831 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 37.0 3.62e-01 81.6% 69.1%
4026643 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 37.0 3.43e-01 100.0% 54.1%
4356796 1001.1.1.1 ↗ a+b two layers › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Molybdop_Fe4S4 0.51 35.0 3.24e-01 75.5% 51.4%
5018204 7520.1.1.0 ↗ a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like 0.51 40.0 2.98e-01 100.0% 34.5%
5044375 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.51 42.0 2.81e-01 100.0% 47.2%
3329783 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.51 40.0 3.44e-01 100.0% 62.1%
3961321 223.3.1.2 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Peptidase_S11 0.50 42.0 3.36e-01 100.0% 50.9%