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NC_006883.2__YP_214335.1__PSSM2_103__00102

Bact-Vir

NC_006883.2__YP_214335.1__PSSM2_103__00102

Identity

Accession:
NC_006883 ↗
Kingdom:
phage

Quality

87.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Salacisavirus› Prochlorococcus_phage_P-SSM2

TaxID: 268746

Cluster

View cluster (7 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 3-57
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yllC02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.71 46.0 3.68e-01 80.0% 33.0%
5tipA01 2.70.9.10 Mainly Beta › Distorted Sandwich › Adenovirus Type 2 Hexon; domain 4 › Adenovirus Type 2 Hexon, domain 4 0.71 55.0 3.79e-01 85.5% 48.4%
2vecA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.71 45.0 3.73e-01 80.0% 35.0%
3gm8A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 48.0 4.31e-01 87.3% 53.8%
1wgdA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.65 43.0 3.72e-01 87.3% 40.9%
2vvfA01 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.65 49.0 3.69e-01 83.6% 56.7%
2xvlA02 2.60.120.380 Mainly Beta › Sandwich › Jelly Rolls › 0.65 52.0 3.81e-01 87.3% 74.1%
1yq2A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 54.0 4.27e-01 94.5% 55.7%
1d2oA01 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.63 49.0 3.91e-01 83.6% 46.7%
2fcbA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 45.0 3.90e-01 81.8% 48.3%
5tipA02 2.70.9.20 Mainly Beta › Distorted Sandwich › Adenovirus Type 2 Hexon; domain 4 › Major capsid protein Vp54 0.63 49.0 3.36e-01 89.1% 41.4%
2jveA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.63 44.0 4.12e-01 80.0% 59.2%
2nx8A00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.62 49.0 3.56e-01 90.9% 70.2%
2bv4A00 2.60.120.400 Mainly Beta › Sandwich › Jelly Rolls › Calcium-mediated lectin 0.62 47.0 3.69e-01 81.8% 39.8%
1ekbB02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.62 46.0 3.72e-01 81.8% 88.1%
3skvA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.61 46.0 3.36e-01 81.8% 29.2%
2vsdA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 49.0 4.11e-01 87.3% 52.7%
3cu7A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.61 48.0 3.96e-01 89.1% 52.8%
1euvB00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 38.0 3.46e-01 98.2% 45.6%
4qawH03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.60 45.0 3.42e-01 81.8% 38.1%
5zruA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.59 45.0 3.32e-01 83.6% 45.5%
1tdjA03 3.40.1020.10 Alpha Beta › 3-Layer(aba) Sandwich › Biosynthetic Threonine Deaminase; domain 3 › Biosynthetic Threonine Deaminase; Domain 3 0.59 42.0 3.08e-01 78.2% 47.2%
6grqA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 46.0 3.99e-01 87.3% 54.5%
3n0aA02 2.60.40.1110 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 49.0 3.71e-01 94.5% 46.7%
2xliA01 3.30.70.2540 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › CRISPR-associated endoribonuclease Cas6/Csy4 0.58 49.0 3.64e-01 100.0% 84.6%
2jwpA00 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.58 43.0 3.04e-01 80.0% 36.2%
1ollA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 46.0 3.85e-01 87.3% 52.6%
3glkA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.57 41.0 4.03e-01 80.0% 72.9%
2e56A00 2.60.40.770 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 43.0 3.29e-01 87.3% 48.6%
1darA05 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 44.0 3.88e-01 89.1% 83.9%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.56 43.0 3.22e-01 85.5% 32.4%
2vvfA02 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.56 40.0 3.22e-01 81.8% 53.1%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.55 46.0 4.03e-01 100.0% 76.1%
3abzA03 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 44.0 3.24e-01 92.7% 34.5%
5fr6A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 38.0 3.43e-01 90.9% 49.4%
2hjeA02 2.20.20.100 Mainly Beta › Single Sheet › Anthopleurin-A › LuxQ periplasmic domain, C-terminal subdomain 0.55 42.0 4.23e-01 80.0% 98.1%
4hpmD00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 36.0 3.22e-01 78.2% 45.1%
4kc3B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 41.0 3.58e-01 89.1% 53.7%
4x83A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.37e-01 89.1% 50.6%
2j8bA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.53 38.0 3.49e-01 89.1% 56.4%
4tq1A02 3.10.20.620 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 36.0 3.19e-01 96.4% 46.2%
4qu6A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 40.0 3.57e-01 96.4% 96.7%
2mlbA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.51 34.0 3.16e-01 92.7% 49.4%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4531584 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.80 56.0 6.30e-01 80.0% 100.0%
3708300 317.1.1.1 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.71 50.0 3.50e-01 76.4% 35.8%
5059796 4326.1.1.0 ↗ a+b two layers › ERH-like › ERH-like › ERH-like 0.71 54.0 5.10e-01 87.3% 68.1%
3598991 317.1.1.0 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase 0.65 50.0 3.52e-01 87.3% 53.2%
184942 10.2.1.56 ↗ beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) › P2_N 0.65 49.0 3.69e-01 83.6% 56.7%
3404614 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.65 50.0 4.40e-01 94.5% 57.5%
3988217 241.12.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › YktB/PF0168-like › YktB/PF0168-like 0.64 47.0 3.31e-01 92.7% 22.5%
3414008 221.1.1.51 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › USP7_C2 0.64 50.0 4.21e-01 94.5% 49.0%
5032056 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 49.0 4.08e-01 87.3% 92.2%
3405468 904.1.1.14 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › SNAPC3 0.62 46.0 4.70e-01 80.0% 80.0%
3281602 379.1.1.0 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors 0.61 46.0 4.87e-01 94.5% 95.8%
5047307 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.61 39.0 3.45e-01 72.7% 43.4%
4981878 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.61 42.0 3.98e-01 90.9% 58.6%
3887305 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 45.0 4.52e-01 80.0% 83.6%
3769262 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.58 39.0 3.39e-01 78.2% 42.1%
4654074 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.57 48.0 4.15e-01 98.2% 83.3%
3595471 317.1.1.0 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase 0.57 45.0 3.17e-01 92.7% 42.5%
3330429 101.1.9.83 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › TRM 0.57 40.0 3.30e-01 76.4% 38.2%
4943464 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.57 41.0 3.57e-01 81.8% 95.8%
3789426 221.1.1.43 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF3337 0.56 38.0 3.07e-01 96.4% 33.9%
3172325 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.56 41.0 3.45e-01 92.7% 45.0%
3489205 221.1.1.43 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF3337 0.56 36.0 2.88e-01 78.2% 31.3%
3792014 221.1.1.43 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF3337 0.55 37.0 3.02e-01 81.8% 34.5%
4220125 304.110.1.4 ↗ a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like › UPF0176_N 0.55 44.0 3.67e-01 92.7% 74.3%
2389482 10.32.1.38 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Malectin_like 0.55 41.0 3.02e-01 81.8% 34.0%
4124102 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.54 46.0 3.13e-01 100.0% 38.3%
3481499 223.1.1.119 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › Intu_longin_2 0.53 39.0 2.90e-01 80.0% 83.2%
3626607 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.53 38.0 3.19e-01 96.4% 41.3%
3336122 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.53 39.0 3.09e-01 83.6% 48.0%
3777156 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 40.0 2.82e-01 81.8% 62.0%
3667522 223.2.1.31 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_2 0.51 40.0 2.74e-01 83.6% 54.4%
3666584 221.1.1.68 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ATG5_UblA 0.51 35.0 3.25e-01 96.4% 52.5%
3581478 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 39.0 3.84e-01 96.4% 78.3%
3660081 10.32.1.37 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Malectin 0.51 39.0 2.82e-01 89.1% 54.4%
4024042 223.2.1.31 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_2 0.51 40.0 2.69e-01 83.6% 62.7%
4527463 221.1.1.24 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ATG5_UblB 0.50 34.0 3.01e-01 80.0% 44.4%