←Back to structures
NC_054771.1__YP_010060404.1__KIP28_gp48__00042
Bact-VirNC_054771.1__YP_010060404.1__KIP28_gp48__00042
Identity
- Accession:
- NC_054771 ↗
- Kingdom:
- phage
Quality
89.2
mean pLDDT
Taxonomy
TaxID: 2725640
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 2-50
Domain cluster:
representative
CATH (32)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1fxkB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.74 | 50.0 | 3.86e-01 | 71.4% | 72.5% |
| 2ltrA00 | 3.30.160.20 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › | 0.67 | 47.0 | 3.63e-01 | 98.0% | 34.3% |
| 3wxmB02 | 3.30.420.60 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 | 0.67 | 57.0 | 4.38e-01 | 100.0% | 41.8% |
| 3uuwB02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.67 | 46.0 | 3.17e-01 | 81.6% | 20.1% |
| 4mbsA00 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.66 | 51.0 | 3.14e-01 | 89.8% | 75.7% |
| 4djhA01 | 1.20.1070.10 | Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins | 0.66 | 54.0 | 3.46e-01 | 100.0% | 33.4% |
| 2zdiB00 | 1.10.287.370 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › | 0.66 | 49.0 | 3.75e-01 | 79.6% | 100.0% |
| 5ucoA02 | 3.40.47.10 | Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase | 0.65 | 44.0 | 3.11e-01 | 98.0% | 22.9% |
| 2f1rA00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.63 | 38.0 | 2.71e-01 | 93.9% | 18.2% |
| 5w0kA01 | 3.90.380.20 | Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Herpesvirus glycoprotein H, domain D-II | 0.63 | 49.0 | 3.00e-01 | 87.8% | 64.9% |
| 2c60A01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.63 | 41.0 | 3.60e-01 | 100.0% | 41.8% |
| 3jtzA00 | 3.30.160.390 | Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Integrase, DNA-binding domain | 0.62 | 46.0 | 4.09e-01 | 100.0% | 53.2% |
| 1qysA00 | 3.30.1710.10 | Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein | 0.61 | 44.0 | 3.71e-01 | 98.0% | 42.4% |
| 2o3iA01 | 3.40.1610.10 | Alpha Beta › 3-Layer(aba) Sandwich › CV3147-like fold › CV3147-like domain | 0.61 | 46.0 | 3.00e-01 | 91.8% | 16.9% |
| 5ttjA01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.61 | 51.0 | 3.27e-01 | 100.0% | 20.4% |
| 1lc0A02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.60 | 56.0 | 3.87e-01 | 100.0% | 100.0% |
| 4ok4A02 | 2.70.98.70 | Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › | 0.59 | 52.0 | 3.11e-01 | 100.0% | 27.1% |
| 4dnhA01 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.58 | 47.0 | 2.86e-01 | 93.9% | 18.6% |
| 1g8mA02 | 3.40.140.20 | Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain | 0.57 | 51.0 | 3.46e-01 | 100.0% | 29.0% |
| 3zokA01 | 3.40.50.1970 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.56 | 42.0 | 2.92e-01 | 83.7% | 35.1% |
| 1g6gB00 | 2.60.200.20 | Mainly Beta › Sandwich › Tumour Suppressor Smad4 › | 0.56 | 45.0 | 3.53e-01 | 100.0% | 39.5% |
| 3gdoA02 | 3.30.360.10 | Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 | 0.54 | 48.0 | 3.13e-01 | 98.0% | 78.9% |
| 2nn6G03 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.54 | 40.0 | 3.39e-01 | 83.7% | 88.6% |
| 2cxcA02 | 3.30.300.20 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain | 0.52 | 41.0 | 3.78e-01 | 95.9% | 65.2% |
| 1xm7A00 | 3.60.21.10 | Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases | 0.52 | 37.0 | 2.53e-01 | 75.5% | 23.1% |
| 2z86D02 | 3.90.550.10 | Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 0.52 | 38.0 | 2.50e-01 | 85.7% | 91.2% |
| 1w6kA01 | 6.20.120.20 | Special › Other non-globular › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.52 | 29.0 | 2.96e-01 | 81.6% | 46.0% |
| 3kxyT00 | 6.20.290.10 | Special › Other non-globular › Dna Ligase; domain 1 › | 0.51 | 32.0 | 2.99e-01 | 91.8% | 46.2% |
| 1rh8A00 | 2.60.40.150 | Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain | 0.51 | 40.0 | 2.97e-01 | 100.0% | 31.7% |
| 1cov400 | 4.10.80.10 | Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › Picornavirus coat protein VP4 | 0.51 | 31.0 | 3.03e-01 | 81.6% | 49.1% |
| 3oqgA00 | 3.40.1440.50 | Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › | 0.50 | 43.0 | 2.97e-01 | 100.0% | 34.1% |
| 8dvhB01 | 3.30.230.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.50 | 38.0 | 2.78e-01 | 95.9% | 48.6% |
ECOD (35)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3920672 | 206.1.1.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase | 0.78 | 53.0 | 4.26e-01 | 71.4% | 46.7% |
| 3838659 | 5085.1.1.0 ↗ | a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) | 0.76 | 58.0 | 3.41e-01 | 83.7% | 27.3% |
| 3712081 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.75 | 51.0 | 3.91e-01 | 71.4% | 65.5% |
| 3594965 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.74 | 50.0 | 3.61e-01 | 71.4% | 91.4% |
| 5043788 | 304.56.1.0 ↗ | a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like | 0.72 | 55.0 | 4.31e-01 | 83.7% | 41.9% |
| 5043892 | 3261.1.1.0 ↗ | a+b two layers › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb › amino-terminal domain of OmpATb | 0.71 | 49.0 | 5.04e-01 | 100.0% | 77.8% |
| 3988478 | 857.1.1.1 ↗ | a+b duplicates or obligate multimers › Cell division protein ZapA-like › Cell division protein ZapA-like › Cell division protein ZapA-like › ZapA | 0.71 | 50.0 | 3.94e-01 | 100.0% | 36.7% |
| 5036014 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.71 | 53.0 | 4.20e-01 | 79.6% | 65.3% |
| 3732600 | 3957.1.1.1 ↗ | a+b two layers › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 › Gon7 | 0.70 | 61.0 | 5.04e-01 | 100.0% | 62.2% |
| 5064876 | 101.1.2.14 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_5 | 0.68 | 56.0 | 3.91e-01 | 91.8% | 45.2% |
| 4816887 | 5054.1.1.2 ↗ | alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans | 0.67 | 45.0 | 3.37e-01 | 71.4% | 37.5% |
| 4279367 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.67 | 57.0 | 4.94e-01 | 100.0% | 93.8% |
| 4009814 | 252.2.1.5 ↗ | a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › Arm-DNA-bind_3 | 0.67 | 49.0 | 4.48e-01 | 93.9% | 60.0% |
| 4027687 | 330.3.1.0 ↗ | a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like | 0.66 | 50.0 | 4.81e-01 | 93.9% | 72.7% |
| 3583046 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.65 | 46.0 | 4.47e-01 | 91.8% | 67.3% |
| 3921728 | 192.2.1.0 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin | 0.64 | 50.0 | 3.76e-01 | 83.7% | 59.1% |
| 3667031 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.64 | 52.0 | 4.69e-01 | 98.0% | 100.0% |
| 3378291 | 109.4.1.2216 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, Eplus_motif | 0.64 | 43.0 | 2.46e-01 | 71.4% | 50.4% |
| 5010744 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.64 | 51.0 | 4.70e-01 | 100.0% | 67.7% |
| 4995957 | 310.3.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related | 0.63 | 47.0 | 4.22e-01 | 81.6% | 88.6% |
| 4029439 | 252.2.1.0 ↗ | a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like | 0.62 | 47.0 | 4.22e-01 | 100.0% | 58.0% |
| 5065366 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.62 | 50.0 | 3.81e-01 | 100.0% | 36.7% |
| 4070661 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.62 | 52.0 | 4.75e-01 | 93.9% | 98.5% |
| 3682974 | 7579.1.1.3 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Peptidase_S9 | 0.57 | 49.0 | 3.20e-01 | 100.0% | 37.0% |
| 3998700 | 3998.1.1.1 ↗ | alpha arrays › Peptidase inhibitors family I29 › Peptidase inhibitors family I29 › Peptidase inhibitors family I29 › Inhibitor_I29 | 0.57 | 51.0 | 4.32e-01 | 100.0% | 65.0% |
| 4483302 | 298.1.1.24 ↗ | a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 | 0.56 | 49.0 | 3.30e-01 | 100.0% | 65.8% |
| 3962463 | 4011.1.1.0 ↗ | beta barrels › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins › beta-barrel domain in acetyl-CoA synthetase-like proteins | 0.56 | 44.0 | 4.24e-01 | 100.0% | 76.4% |
| 4238837 | 376.1.2.6 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › PET | 0.54 | 37.0 | 3.44e-01 | 75.5% | 53.7% |
| 3650102 | 207.1.1.95 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_14 | 0.54 | 48.0 | 3.32e-01 | 100.0% | 42.9% |
| 3944499 | 6050.1.1.0 ↗ | a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone | 0.54 | 46.0 | 3.88e-01 | 95.9% | 81.2% |
| 5079449 | 2004.1.1.97 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB | 0.54 | 43.0 | 3.14e-01 | 100.0% | 89.4% |
| 3453496 | 109.4.1.1254 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif | 0.54 | 41.0 | 2.36e-01 | 79.6% | 32.9% |
| 3686272 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.53 | 43.0 | 3.04e-01 | 95.9% | 37.7% |
| 3296177 | 103.5.1.4 ↗ | alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › HCS_D2 | 0.53 | 42.0 | 3.60e-01 | 93.9% | 55.0% |
| 3361836 | 2003.1.2.9 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GDI | 0.51 | 45.0 | 2.99e-01 | 95.9% | 37.7% |