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PLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00320
Bact-VirPLM4_65_coex_sep16_scaffold_0_prodigal-single.1__X__X__00320
Identity
- Kingdom:
- phage
Quality
73.7
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 2-56
Domain cluster:
representative
CATH (38)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4ezgA00 | 3.80.10.10 | Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor | 0.67 | 45.0 | 3.14e-01 | 70.9% | 41.6% |
| 3l84A01 | 3.40.50.970 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains | 0.67 | 45.0 | 2.82e-01 | 70.9% | 81.1% |
| 3rimB01 | 3.40.50.970 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains | 0.66 | 45.0 | 2.79e-01 | 70.9% | 76.7% |
| 1kx5A00 | 1.10.20.10 | Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A | 0.65 | 49.0 | 3.71e-01 | 85.5% | 34.1% |
| 2ja2A02 | 3.90.800.10 | Alpha Beta › Alpha-Beta Complex › Glutamyl-tRNA Synthetase; domain 3 › Glutamyl-tRNA Synthetase; Domain 3 | 0.64 | 40.0 | 3.11e-01 | 90.9% | 29.2% |
| 1u9pA00 | 1.10.1220.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like | 0.63 | 49.0 | 4.20e-01 | 100.0% | 51.0% |
| 3fgtA01 | 2.10.70.60 | Mainly Beta › Ribbon › Complement Module; domain 1 › Phospholipase B-like, domain 1 | 0.62 | 31.0 | 3.17e-01 | 80.0% | 41.8% |
| 6y6hA02 | 1.10.510.10 | Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 | 0.62 | 48.0 | 3.42e-01 | 87.3% | 53.4% |
| 1lkxC03 | 1.20.120.720 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain | 0.61 | 44.0 | 3.57e-01 | 78.2% | 66.4% |
| 2v84A02 | 3.40.190.10 | Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II | 0.61 | 42.0 | 3.08e-01 | 70.9% | 25.9% |
| 2ld7A00 | 6.10.160.20 | Special › Helix non-globular › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › | 0.60 | 45.0 | 3.84e-01 | 85.5% | 48.9% |
| 1ltlA03 | 2.20.28.10 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.58 | 37.0 | 3.93e-01 | 96.4% | 73.5% |
| 3bkhA01 | 1.10.101.10 | Mainly Alpha › Orthogonal Bundle › Muramoyl-pentapeptide Carboxypeptidase; domain 1 › PGBD-like superfamily/PGBD | 0.58 | 45.0 | 3.90e-01 | 98.2% | 54.7% |
| 2kvdA02 | 1.10.720.30 | Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › SAP domain | 0.58 | 39.0 | 3.95e-01 | 74.5% | 93.1% |
| 3p2aA01 | 2.30.30.380 | Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 | 0.55 | 33.0 | 3.78e-01 | 94.5% | 91.7% |
| 2nq2D00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.54 | 42.0 | 2.82e-01 | 87.3% | 52.4% |
| 4dokA02 | 1.10.890.20 | Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › | 0.54 | 38.0 | 3.88e-01 | 87.3% | 77.4% |
| 6djwA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.54 | 46.0 | 4.21e-01 | 96.4% | 100.0% |
| 1v6eA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.54 | 44.0 | 3.97e-01 | 94.5% | 98.8% |
| 4lmyA02 | 3.30.1490.190 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain | 0.53 | 40.0 | 4.05e-01 | 94.5% | 87.0% |
| 2jkgA00 | 3.30.450.30 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic | 0.53 | 46.0 | 3.31e-01 | 100.0% | 40.6% |
| 6rzqA04 | 3.90.640.10 | Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 | 0.53 | 37.0 | 3.30e-01 | 76.4% | 50.6% |
| 5u3fB01 | 3.30.470.10 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain | 0.53 | 39.0 | 2.93e-01 | 85.5% | 31.4% |
| 4rayA02 | 3.30.1490.190 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain | 0.52 | 39.0 | 4.07e-01 | 98.2% | 96.0% |
| 1vw4X00 | 2.20.28.120 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › Ribosomal protein L33 | 0.52 | 34.0 | 3.35e-01 | 100.0% | 59.4% |
| 4ljiB00 | 1.10.760.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain | 0.52 | 42.0 | 3.36e-01 | 98.2% | 74.8% |
| 1e29A00 | 1.10.760.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain | 0.52 | 44.0 | 3.37e-01 | 98.2% | 77.8% |
| 3bm4A00 | 3.90.79.10 | Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase | 0.52 | 38.0 | 2.67e-01 | 81.8% | 45.2% |
| 1j0gA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.52 | 41.0 | 3.61e-01 | 96.4% | 82.6% |
| 4mtdA02 | 3.30.1490.190 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain | 0.51 | 38.0 | 3.68e-01 | 94.5% | 73.0% |
| 3ar4A04 | 3.40.1110.10 | Alpha Beta › 3-Layer(aba) Sandwich › Calcium-transporting ATPase, cytoplasmic domain N › Calcium-transporting ATPase, cytoplasmic domain N | 0.51 | 38.0 | 2.48e-01 | 80.0% | 77.9% |
| 2wxfA02 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.51 | 41.0 | 3.36e-01 | 96.4% | 72.3% |
| 1k8kA04 | 3.90.640.10 | Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 | 0.51 | 34.0 | 2.95e-01 | 74.5% | 41.3% |
| 2ctoA01 | 1.10.30.10 | Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain | 0.50 | 34.0 | 3.33e-01 | 94.5% | 63.9% |
| 2gz4A00 | 1.10.3210.10 | Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 | 0.50 | 40.0 | 2.92e-01 | 100.0% | 58.5% |
| 3vn5A02 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.50 | 42.0 | 2.89e-01 | 92.7% | 57.5% |
| 6ln0A02 | 1.10.8.1190 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Papain-like viral protease, thumb domain | 0.50 | 40.0 | 3.47e-01 | 100.0% | 52.9% |
| 2xigA02 | 3.30.1490.190 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain | 0.50 | 39.0 | 3.98e-01 | 100.0% | 92.7% |
ECOD (47)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4441863 | 221.1.1.109 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Sde2_N_Ubi_vert | 0.73 | 45.0 | 4.16e-01 | 96.4% | 48.6% |
| None | — | 0.64 | 48.0 | 2.79e-01 | 81.8% | 46.7% | |
| 4307412 | 181.1.1.27 ↗ | alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › ATP-cone | 0.63 | 51.0 | 4.43e-01 | 89.1% | 98.8% |
| 3958400 | 2005.1.1.5 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1c | 0.62 | 43.0 | 2.98e-01 | 72.7% | 88.6% |
| 3552760 | 130.1.1.6 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › PRP4 | 0.62 | 40.0 | 4.59e-01 | 96.4% | 92.5% |
| 4531707 | 109.3.1.33 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_2,Ank_3 | 0.62 | 49.0 | 3.60e-01 | 94.5% | 45.1% |
| 5012106 | 101.1.2.25 ↗ | alpha arrays › HTH › HTH › winged helix domain › FUR | 0.61 | 38.0 | 2.85e-01 | 72.7% | 25.2% |
| 1522956 | 7523.1.1.0 ↗ | a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II | 0.61 | 42.0 | 3.27e-01 | 70.9% | 32.3% |
| 3970701 | 560.1.1.0 ↗ | few secondary structure elements › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain | 0.60 | 33.0 | 3.82e-01 | 100.0% | 75.0% |
| 3465503 | 130.1.1.6 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › PRP4 | 0.59 | 43.0 | 4.21e-01 | 78.2% | 80.0% |
| 3247480 | 101.1.2.531 ↗ | alpha arrays › HTH › HTH › winged helix domain › TF_AP-2 | 0.59 | 45.0 | 3.97e-01 | 85.5% | 95.3% |
| 3171454 | 101.1.2.12 ↗ | alpha arrays › HTH › HTH › winged helix domain › DEP | 0.58 | 37.0 | 2.95e-01 | 74.5% | 31.8% |
| 3631772 | 144.1.1.0 ↗ | alpha arrays › PGBD-like › PGBD-like › PGBD-like | 0.58 | 48.0 | 3.50e-01 | 100.0% | 65.6% |
| 4028716 | 252.2.1.0 ↗ | a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like | 0.58 | 48.0 | 3.76e-01 | 100.0% | 88.1% |
| 4931464 | 822.3.1.0 ↗ | a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 | 0.57 | 43.0 | 4.00e-01 | 96.4% | 62.7% |
| 4971630 | 304.51.1.7 ↗ | a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR_Cas6 | 0.57 | 44.0 | 3.31e-01 | 83.6% | 36.3% |
| 3369564 | 130.1.1.39 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › DUF7086 | 0.57 | 42.0 | 3.27e-01 | 83.6% | 73.6% |
| 3180105 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.57 | 38.0 | 4.36e-01 | 92.7% | 97.5% |
| 4939395 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.57 | 42.0 | 3.29e-01 | 85.5% | 38.6% |
| 3536326 | 1073.1.1.0 ↗ | alpha arrays › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) | 0.56 | 44.0 | 3.82e-01 | 89.1% | 78.9% |
| 3714674 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.56 | 43.0 | 4.30e-01 | 85.5% | 87.3% |
| 4882286 | 2499.2.1.1 ↗ | a/b three-layered sandwiches › Subtilisin-like › Domain III of tail sheath protein Gp18 › Domain III of tail sheath protein Gp18 › Phage_sheath_1 | 0.55 | 40.0 | 3.03e-01 | 81.8% | 31.8% |
| 4161707 | 1023.1.1.1 ↗ | beta barrels › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › ZapC_N | 0.55 | 45.0 | 3.97e-01 | 100.0% | 97.8% |
| 1874307 | 375.1.1.65 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Thio2_N | 0.55 | 33.0 | 3.78e-01 | 94.5% | 91.7% |
| 3479715 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.54 | 43.0 | 3.51e-01 | 90.9% | 76.4% |
| 3815708 | 130.1.1.40 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › DUF7722 | 0.54 | 38.0 | 4.12e-01 | 80.0% | 91.1% |
| 3520581 | 130.1.1.8 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › ARMET_C | 0.54 | 40.0 | 4.35e-01 | 83.6% | 100.0% |
| 5045331 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.54 | 46.0 | 4.55e-01 | 100.0% | 98.3% |
| 3526122 | 109.3.1.8 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_2 | 0.54 | 45.0 | 3.02e-01 | 96.4% | 36.2% |
| None | — | 0.54 | 41.0 | 2.44e-01 | 87.3% | 40.0% | |
| 3440159 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.53 | 41.0 | 3.66e-01 | 89.1% | 67.1% |
| 4191800 | 3075.1.1.0 ↗ | a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA | 0.53 | 34.0 | 3.49e-01 | 96.4% | 65.5% |
| 3271283 | 130.1.1.20 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › HeH | 0.53 | 42.0 | 4.12e-01 | 90.9% | 83.3% |
| 3598653 | 130.1.1.0 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif | 0.53 | 38.0 | 4.04e-01 | 90.9% | 95.6% |
| 3496208 | 206.1.1.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase | 0.52 | 41.0 | 2.58e-01 | 100.0% | 68.7% |
| 3180990 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.52 | 45.0 | 4.12e-01 | 100.0% | 96.0% |
| 3744801 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.52 | 41.0 | 3.87e-01 | 89.1% | 100.0% |
| 3889364 | 221.1.1.164 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PF29299 | 0.52 | 44.0 | 3.93e-01 | 96.4% | 98.8% |
| 3258729 | 221.1.1.56 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_f0 | 0.52 | 43.0 | 3.70e-01 | 96.4% | 100.0% |
| 3491560 | 221.1.1.36 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N | 0.52 | 43.0 | 3.72e-01 | 96.4% | 94.4% |
| 4947243 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.52 | 42.0 | 3.91e-01 | 96.4% | 97.3% |
| 3940247 | 4099.1.1.1 ↗ | a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › MAD | 0.52 | 43.0 | 3.47e-01 | 98.2% | 54.2% |
| 3626178 | 592.7.1.1 ↗ | alpha arrays › PWI domain-like › GIPC1 GH2 domain › GIPC1 GH2 domain › GIPC1_GH2 | 0.51 | 42.0 | 3.67e-01 | 94.5% | 95.6% |
| 3979269 | 2003.6.1.1 ↗ | a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB | 0.51 | 44.0 | 2.84e-01 | 100.0% | 27.3% |
| 3252830 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.51 | 41.0 | 3.67e-01 | 96.4% | 85.9% |
| 3930129 | 130.1.1.6 ↗ | alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif › PRP4 | 0.51 | 43.0 | 4.21e-01 | 94.5% | 91.7% |
| 5045662 | 102.1.2.1 ↗ | alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › HhH-GPD | 0.50 | 43.0 | 2.89e-01 | 98.2% | 27.7% |