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LC554890.1__BCG50191.1__X__00173

Bact-Vir

LC554890.1__BCG50191.1__X__00173

Identity

Accession:
LC554890 ↗
Kingdom:
phage

Quality

93.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Ralstonia_phage_RP13

TaxID: 2743402

Cluster

View cluster (2 members)

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 3-47
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3oymA01 1.10.340.70 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.67 51.0 4.12e-01 86.7% 52.7%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.65 54.0 4.41e-01 100.0% 65.2%
1flmA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 53.0 3.95e-01 100.0% 43.4%
1wi0A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.61 49.0 3.83e-01 97.8% 77.0%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.61 49.0 4.24e-01 97.8% 92.4%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.60 50.0 4.23e-01 100.0% 68.3%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.59 48.0 3.92e-01 100.0% 68.0%
3kysA00 2.70.50.80 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › 0.59 50.0 3.31e-01 100.0% 35.6%
1d3yB02 3.40.1360.10 Alpha Beta › 3-Layer(aba) Sandwich › Dna Topoisomerase Vi A Subunit; Chain: A, domain 2 › 0.59 44.0 2.83e-01 100.0% 17.1%
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.59 49.0 4.80e-01 100.0% 93.9%
2z16B01 1.20.91.10 Mainly Alpha › Up-down Bundle › Influenza Virus Matrix Protein; Chain A, domain 1 › Influenza matrix M1, N-terminal subdomain 1 0.58 43.0 3.77e-01 86.7% 78.2%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.58 48.0 4.08e-01 100.0% 72.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.58 49.0 3.38e-01 100.0% 46.7%
3cw3A00 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.56 42.0 3.41e-01 100.0% 39.8%
4yarA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 42.0 3.16e-01 100.0% 30.9%
2vl6A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.56 45.0 4.48e-01 100.0% 93.8%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.55 39.0 2.38e-01 75.6% 65.2%
1u0mA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.55 38.0 2.91e-01 84.4% 89.7%
4pqqA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.54 44.0 3.19e-01 100.0% 31.4%
3sooA01 3.30.250.20 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › L1 transposable element, C-terminal domain 0.54 40.0 3.55e-01 91.1% 53.6%
4m0wA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.54 46.0 3.32e-01 100.0% 39.4%
2fn0B00 3.60.120.10 Alpha Beta › 4-Layer Sandwich › Anthranilate synthase › Anthranilate synthase 0.54 41.0 2.45e-01 91.1% 15.3%
1pqzA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 40.0 3.26e-01 88.9% 82.2%
3r4cA02 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.53 37.0 2.98e-01 75.6% 96.0%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.52 42.0 3.32e-01 100.0% 56.8%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.52 39.0 3.65e-01 100.0% 65.6%
1jhjA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 43.0 3.03e-01 100.0% 29.8%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.51 42.0 3.69e-01 100.0% 64.5%
3gd0A01 2.60.110.10 Mainly Beta › Sandwich › Thaumatin › Thaumatin 0.51 44.0 2.77e-01 100.0% 42.8%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.51 44.0 3.15e-01 100.0% 39.4%
4bwsF00 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.51 39.0 3.62e-01 100.0% 64.2%
5wfiA01 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.50 43.0 3.21e-01 100.0% 43.0%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4949745 4121.1.1.1 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.64 47.0 2.94e-01 100.0% 14.2%
4158495 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.64 53.0 4.37e-01 100.0% 54.4%
5046850 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.63 51.0 4.26e-01 100.0% 56.7%
4330011 570.1.1.1 ↗ alpha arrays › Pre-protein crosslinking domain of SecA › Pre-protein crosslinking domain of SecA › Pre-protein crosslinking domain of SecA › SecA_PP_bind 0.61 45.0 3.12e-01 84.4% 66.3%
3810516 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 45.0 3.08e-01 86.7% 44.1%
4466734 103.2.1.2 ↗ alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone 0.61 46.0 3.57e-01 88.9% 60.0%
3622068 221.1.1.4 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PB1 0.60 47.0 4.01e-01 97.8% 80.0%
4995409 4121.1.1.1 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.60 42.0 2.68e-01 100.0% 13.6%
2579422 4326.1.1.1 ↗ a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.60 51.0 4.08e-01 100.0% 59.6%
3874660 2.1.1.131 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SHLD2_C 0.59 52.0 3.44e-01 100.0% 40.0%
5002607 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.59 48.0 4.08e-01 100.0% 100.0%
3935777 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 46.0 4.04e-01 97.8% 88.7%
4964131 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.59 43.0 2.91e-01 82.2% 46.2%
3541120 2.1.1.131 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SHLD2_C 0.59 51.0 3.72e-01 100.0% 43.2%
3923043 4326.1.1.1 ↗ a+b two layers › ERH-like › ERH-like › ERH-like › ER 0.58 50.0 3.94e-01 100.0% 70.0%
3963810 1.1.3.1 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MraZ 0.58 49.0 3.54e-01 100.0% 37.9%
4957597 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.58 47.0 3.93e-01 100.0% 94.4%
3721580 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.58 46.0 2.85e-01 100.0% 14.4%
1844315 210.1.6.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Gamma-glutamyltranspeptidase-like › G_glu_transpept 0.58 43.0 2.64e-01 84.4% 21.0%
4024055 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 48.0 3.26e-01 100.0% 38.4%
3393383 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.58 46.0 4.42e-01 100.0% 77.8%
4928213 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.58 44.0 4.10e-01 100.0% 87.1%
3209145 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 46.0 4.00e-01 100.0% 93.8%
4139949 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.56 40.0 4.13e-01 95.6% 92.5%
2756612 304.31.1.1 ↗ a+b two layers › Alpha-beta plaits › HMG-CoA reductase › NAD-binding domain of HMG-CoA reductase › HMG-CoA_red 0.56 44.0 3.45e-01 100.0% 96.7%
3833836 109.4.1.619 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DYW_deaminase 0.56 47.0 3.43e-01 100.0% 68.3%
3734369 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.56 47.0 2.87e-01 100.0% 14.4%
3705856 4121.1.1.1 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › CorA 0.56 46.0 2.85e-01 100.0% 14.7%
4006572 171.1.1.12 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › PF28438 0.56 39.0 3.68e-01 100.0% 56.9%
3941676 1077.1.1.1 ↗ few secondary structure elements › RelA zinc-finger domain › RelA zinc-finger domain › RelA zinc-finger domain › RelA_RIS 0.55 40.0 3.60e-01 100.0% 52.9%
3594014 2007.2.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.54 41.0 2.76e-01 93.3% 37.9%
4669964 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.54 39.0 2.49e-01 77.8% 34.6%
5076160 284.1.2.0 ↗ a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases 0.54 45.0 3.48e-01 100.0% 58.8%
3909855 12.5.1.2 ↗ beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › GPS 0.54 40.0 2.76e-01 100.0% 20.5%
3590261 822.3.1.1 ↗ a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 › DUF4649 0.54 43.0 3.93e-01 100.0% 70.6%
3618241 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.54 44.0 3.49e-01 100.0% 74.3%
3987692 822.3.1.1 ↗ a+b two layers › GYF/BRK domain-like › conserved domain protein SP_1775 › conserved domain protein SP_1775 › DUF4649 0.53 42.0 3.82e-01 100.0% 65.7%
145103 2006.1.1.37 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › S6PP+Hydrolase_3 0.53 40.0 2.64e-01 95.6% 79.5%
3398228 221.7.1.1 ↗ a+b two layers › beta-Grasp › E2-binding domain of E1 › E2-binding domain of E1 › E2_bind 0.52 37.0 3.07e-01 84.4% 76.0%
4566976 375.14.2.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS2) 0.52 38.0 3.96e-01 100.0% 92.5%
3282976 10.12.1.4 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › dTDP_sugar_isom 0.51 43.0 2.94e-01 100.0% 35.0%
3735415 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.50 38.0 2.25e-01 86.7% 42.0%
3396643 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.50 39.0 2.94e-01 97.8% 95.9%
4031792 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.50 40.0 2.64e-01 97.8% 78.7%