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NC_042084.1__YP_009620135.1__FDJ09_gp55__00055

Bact-Vir

NC_042084.1__YP_009620135.1__FDJ09_gp55__00055

Identity

Accession:
NC_042084 ↗
Kingdom:
phage

Quality

77.9 mean pLDDT

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 2-53
PDB
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d33A00 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.79 72.0 5.81e-01 100.0% 56.4%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.78 68.0 5.92e-01 100.0% 84.1%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.77 69.0 4.77e-01 100.0% 92.8%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.77 68.0 5.03e-01 100.0% 41.4%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.76 60.0 5.60e-01 88.5% 69.7%
3tp4B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.74 67.0 5.49e-01 100.0% 58.1%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.71 56.0 4.69e-01 88.5% 67.4%
3klqA01 2.60.40.3050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.70 61.0 4.73e-01 100.0% 49.6%
2xf1A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.70 57.0 4.53e-01 100.0% 44.3%
3k5iA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.70 47.0 3.19e-01 71.2% 35.9%
7jooC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 62.0 5.04e-01 100.0% 76.3%
3c12A02 2.60.40.4070 Mainly Beta › Sandwich › Immunoglobulin-like › 0.69 61.0 5.17e-01 100.0% 72.4%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.69 59.0 4.37e-01 98.1% 62.3%
5icuA00 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.69 60.0 4.86e-01 100.0% 55.9%
1bu6O01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.67 58.0 3.75e-01 100.0% 52.2%
5d1oA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.67 57.0 5.17e-01 100.0% 72.6%
2vugA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.67 56.0 5.13e-01 100.0% 70.8%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.67 53.0 4.55e-01 88.5% 90.5%
2z9iC01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.66 59.0 4.87e-01 100.0% 58.7%
2ic2A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 57.0 4.62e-01 100.0% 61.5%
2r6fA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.66 56.0 5.06e-01 100.0% 70.8%
1p6oA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.64 57.0 4.08e-01 100.0% 62.2%
3gqqA00 2.70.50.40 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › GMP phosphodiesterase, delta subunit 0.64 56.0 3.98e-01 100.0% 53.9%
1g71A01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.64 54.0 3.57e-01 100.0% 64.0%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 54.0 4.40e-01 100.0% 50.0%
2lojA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.64 35.0 3.90e-01 98.1% 64.1%
3ci0J02 2.10.70.20 Mainly Beta › Ribbon › Complement Module; domain 1 › gspk-gspi-gspj complex like domains 0.62 45.0 4.62e-01 100.0% 82.0%
4a8jB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 49.0 3.27e-01 88.5% 39.5%
2b9lA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.61 53.0 3.81e-01 100.0% 40.1%
3tqtA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.60 44.0 4.15e-01 90.4% 64.7%
4it4E01 2.40.30.320 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.59 51.0 4.03e-01 100.0% 81.6%
1nj4A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.59 49.0 3.25e-01 100.0% 70.0%
2azpA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.58 44.0 3.27e-01 90.4% 47.2%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.57 51.0 3.54e-01 100.0% 86.1%
4ic6C01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.57 46.0 3.79e-01 100.0% 58.2%
3q6oA02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 40.0 3.31e-01 78.8% 74.8%
1v57A03 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 44.0 3.41e-01 96.2% 47.9%
1w5dA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.56 44.0 3.03e-01 100.0% 65.6%
5yjwA00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.55 41.0 2.45e-01 84.6% 22.9%
2ckaA01 3.40.5.120 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › 0.55 40.0 4.09e-01 98.1% 85.7%
5x6vF00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 50.0 3.80e-01 100.0% 74.6%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 44.0 3.38e-01 88.5% 64.4%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.53 37.0 2.79e-01 76.9% 92.8%
5x6vG00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.53 44.0 3.26e-01 92.3% 67.4%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 41.0 3.78e-01 100.0% 94.9%
2ch5B02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 41.0 2.96e-01 98.1% 97.0%
3mezD00 2.90.10.10 Mainly Beta › Orthogonal Prism › Agglutinin, subunit A › Bulb-type lectin domain 0.52 35.0 2.79e-01 71.2% 58.9%
1zc6A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 41.0 3.14e-01 100.0% 96.2%
3r7wC02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 47.0 3.65e-01 100.0% 78.5%
4ftxB01 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.52 45.0 3.42e-01 100.0% 86.7%
3vpbB03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 41.0 3.39e-01 100.0% 69.6%
3pfsB00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.51 38.0 3.00e-01 88.5% 86.9%
3kfvA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.50 39.0 3.36e-01 96.2% 98.0%
ECOD (70)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3404658 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.84 77.0 6.55e-01 100.0% 71.2%
5034209 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.73 67.0 6.35e-01 100.0% 90.0%
3412235 2487.1.1.7 a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › PA 0.73 59.0 4.30e-01 90.4% 97.9%
3800762 2011.1.1.3 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M17 0.72 59.0 3.80e-01 94.2% 20.8%
420847 224.1.1.1 a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.72 60.0 4.73e-01 100.0% 45.0%
5036063 206.1.3.21 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.70 53.0 3.65e-01 88.5% 23.9%
4952123 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.70 59.0 5.69e-01 100.0% 93.3%
3601494 210.2.1.0 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain 0.69 61.0 3.75e-01 100.0% 48.1%
4065108 284.3.1.1 a+b two layers › FKBP-like › Colicin E3 immunity protein › Colicin E3 immunity protein › Cloacin_immun 0.68 54.0 4.62e-01 88.5% 89.4%
3713011 210.2.1.1 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.67 58.0 3.63e-01 100.0% 49.2%
3272119 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.67 58.0 4.44e-01 100.0% 64.0%
4929510 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 49.0 4.98e-01 78.8% 98.0%
4026251 2492.1.1.8 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.65 54.0 3.80e-01 100.0% 44.2%
3586980 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 56.0 4.26e-01 100.0% 59.4%
3976575 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.65 51.0 3.76e-01 86.5% 36.3%
3584610 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.65 57.0 4.09e-01 100.0% 39.3%
2770666 834.1.1.1 a+b two layers › Photosystem I subunit PsaD › Photosystem I subunit PsaD › Photosystem I subunit PsaD › PsaD 0.65 55.0 4.07e-01 100.0% 48.3%
3966115 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.63 51.0 3.51e-01 86.5% 48.1%
3081033 227.1.1.4 a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.62 56.0 4.17e-01 100.0% 92.1%
3927505 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.62 51.0 4.60e-01 100.0% 98.8%
3782773 822.1.1.1 a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.62 51.0 5.04e-01 100.0% 89.1%
4945022 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 52.0 4.07e-01 90.4% 76.0%
3959440 4.1.1.180 beta barrels › SH3 › SH3 › SH3 › DUF3107 0.61 45.0 4.29e-01 86.5% 100.0%
3176963 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.60 50.0 3.63e-01 88.5% 96.2%
4933587 325.1.2.1 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Molybdopterin synthase subunit MoaE › MoaE 0.60 54.0 3.90e-01 100.0% 63.4%
3976564 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.60 49.0 3.55e-01 92.3% 33.3%
3727505 223.2.1.5 a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 0.58 49.0 3.81e-01 88.5% 83.0%
4944953 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.58 49.0 3.85e-01 92.3% 80.0%
3983387 223.1.1.57 a+b three layers › Profilin-like › sensor domains › sensor domains › CSS-motif 0.58 49.0 3.37e-01 90.4% 40.0%
4382604 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.57 49.0 3.75e-01 90.4% 57.1%
169012 223.2.1.1 a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.57 51.0 3.51e-01 100.0% 83.5%
4973786 223.1.1.24 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_8 0.56 47.0 3.58e-01 90.4% 87.8%
3977017 223.1.1.57 a+b three layers › Profilin-like › sensor domains › sensor domains › CSS-motif 0.56 41.0 2.84e-01 86.5% 45.3%
4014325 376.1.1.0 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.56 45.0 4.20e-01 100.0% 71.4%
3592234 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 46.0 3.52e-01 88.5% 76.4%
3698579 223.2.1.5 a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 0.56 46.0 3.51e-01 88.5% 76.4%
3972340 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.56 39.0 3.43e-01 78.8% 55.6%
4558763 223.2.1.20 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_1 0.55 51.0 3.69e-01 100.0% 63.7%
4966557 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 46.0 2.86e-01 100.0% 31.0%
3735073 304.9.1.9 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_2 0.55 44.0 2.91e-01 98.1% 32.3%
3510118 4076.1.1.0 a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.55 46.0 4.54e-01 98.1% 90.9%
3996654 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 45.0 3.45e-01 88.5% 83.6%
5051142 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 50.0 3.56e-01 100.0% 63.4%
3739712 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.55 49.0 3.64e-01 100.0% 70.8%
3332301 2485.1.1.20 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Glrx-like 0.55 38.0 3.22e-01 78.8% 47.6%
3751173 4357.1.1.0 beta barrels › WWE domain › WWE domain › WWE domain 0.54 42.0 3.83e-01 90.4% 98.7%
3407363 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.54 45.0 3.21e-01 90.4% 57.2%
4020851 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 49.0 3.62e-01 100.0% 78.5%
3741339 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 44.0 3.59e-01 88.5% 80.6%
3736912 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.54 49.0 3.61e-01 100.0% 76.9%
3792565 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.53 38.0 3.06e-01 76.9% 81.0%
3916901 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.53 41.0 3.68e-01 100.0% 88.9%
4406921 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.53 37.0 3.30e-01 82.7% 48.2%
5046495 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 47.0 3.76e-01 100.0% 66.0%
3256878 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 47.0 3.38e-01 100.0% 58.6%
4017584 2485.1.1.39 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › GST_N_2 0.52 38.0 3.26e-01 84.6% 46.7%
4431296 2004.1.1.307 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Spore_III_AA 0.52 42.0 2.67e-01 94.2% 39.4%
5046621 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 47.0 3.51e-01 100.0% 69.6%
3249789 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 40.0 3.21e-01 98.1% 66.9%
3705774 223.2.1.42 a+b three layers › Profilin-like › profilin-like › profilin-like › Synaptobrevin 0.51 46.0 3.00e-01 100.0% 46.7%
5053041 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 46.0 3.38e-01 100.0% 67.4%
3175751 210.1.3.5 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_7 0.51 40.0 2.84e-01 98.1% 29.5%
3715519 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 46.0 3.02e-01 100.0% 39.5%
3482731 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.51 37.0 2.96e-01 86.5% 36.3%
4029381 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 46.0 3.10e-01 100.0% 50.0%
4018561 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.51 45.0 3.26e-01 100.0% 81.4%
3168516 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.51 46.0 3.24e-01 100.0% 74.7%
4021454 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 45.0 3.32e-01 100.0% 60.7%
4977323 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.50 46.0 3.42e-01 100.0% 77.6%
3722450 223.2.1.10 a+b three layers › Profilin-like › profilin-like › profilin-like › Gtr1_RagA 0.50 45.0 3.26e-01 100.0% 71.7%