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NC_055775.1__YP_010099265.1__KNU19_gp22__00022

Bact-Vir

NC_055775.1__YP_010099265.1__KNU19_gp22__00022

Identity

Accession:
NC_055775 ↗
Kingdom:
phage

Quality

84.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Stackebrandtviridae› Vividuovirus› Gordonia_phage_Fosterous

TaxID: 2483668

Cluster

Singleton — not in a non-trivial cluster

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 54-133
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4r03A00 2.40.128.720 Mainly Beta › Beta Barrel › Lipocalin › 0.69 60.0 5.43e-01 97.5% 73.4%
4ghbA00 2.40.160.190 Mainly Beta › Beta Barrel › Porin › 0.68 60.0 4.22e-01 100.0% 31.8%
2af5A02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.67 50.0 4.18e-01 95.0% 46.4%
3hdjA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.64 48.0 4.05e-01 87.5% 46.4%
1f49A05 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.63 51.0 3.53e-01 90.0% 44.1%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.63 55.0 4.53e-01 100.0% 58.2%
4qa8A00 2.50.20.20 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.62 54.0 3.93e-01 95.0% 41.4%
3oe3C00 2.40.128.200 Mainly Beta › Beta Barrel › Lipocalin › C-type lysozyme inhibitor 0.62 40.0 3.96e-01 88.7% 61.4%
3w9kA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.61 50.0 4.27e-01 100.0% 54.1%
2z0lA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.61 50.0 3.39e-01 90.0% 34.2%
2uvaG07 3.30.1120.100 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.58 49.0 4.20e-01 96.2% 61.0%
5da9A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.58 47.0 3.13e-01 90.0% 34.0%
2zxqA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 49.0 3.90e-01 97.5% 50.0%
1fuwA00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 45.0 4.39e-01 87.5% 94.5%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 46.0 3.86e-01 100.0% 49.7%
2otrA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.56 35.0 3.42e-01 86.3% 55.6%
7qrlA01 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.55 43.0 3.64e-01 83.7% 60.7%
1lkeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.55 47.0 3.81e-01 96.2% 58.0%
3dtdD00 2.60.40.1880 Mainly Beta › Sandwich › Immunoglobulin-like › Invasion associated locus B (IalB) protein 0.55 45.0 3.83e-01 95.0% 63.4%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 39.0 3.37e-01 73.8% 96.0%
2v43A01 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.54 43.0 3.42e-01 91.3% 90.2%
3eliA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 44.0 3.84e-01 100.0% 61.1%
7jvhC01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 45.0 3.05e-01 96.2% 34.2%
3pu2B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.53 46.0 3.80e-01 100.0% 57.5%
4xa2A01 3.30.700.10 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › Glycoprotein, Type 4 Pilin 0.53 46.0 4.16e-01 98.8% 77.9%
5h9kA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 45.0 3.72e-01 97.5% 63.6%
2v1lA00 3.10.450.430 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Protein of unknown function DUF2787 0.53 45.0 3.85e-01 100.0% 58.1%
1k07A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 45.0 3.26e-01 100.0% 80.9%
3cnwA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.53 45.0 3.84e-01 100.0% 57.4%
2gsbA01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.52 39.0 3.88e-01 100.0% 77.4%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.52 43.0 3.95e-01 98.8% 68.8%
4aghA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.52 33.0 3.40e-01 70.0% 65.0%
3pcrA01 3.10.450.460 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › EspG protein, N-terminal domain 0.52 45.0 4.31e-01 97.5% 87.2%
3dsmA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 43.0 2.94e-01 96.2% 30.0%
2qmiA02 2.40.128.210 Mainly Beta › Beta Barrel › Lipocalin › Pab87 octamerisation domain 0.52 42.0 3.91e-01 88.7% 89.0%
3ci0J01 3.10.610.10 Alpha Beta › Roll › Pili subunits › GSPII I/J protein-like 0.51 42.0 3.84e-01 88.7% 76.0%
2fp8B00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 43.0 3.02e-01 100.0% 36.0%
6psyA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.50 43.0 3.22e-01 100.0% 58.6%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3387043 378.1.1.1 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › Endonuclease_NS 0.73 63.0 4.68e-01 95.0% 84.8%
4057793 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.70 56.0 4.39e-01 91.3% 41.8%
4298074 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.69 56.0 4.28e-01 91.3% 39.4%
1099835 77.1.1.1 ↗ beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein › Lipoprotein_1 0.69 54.0 4.96e-01 95.0% 64.2%
185765 5084.5.1.13 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Porin › DUF4595 0.68 60.0 4.22e-01 100.0% 31.8%
2362 71.2.1.1 ↗ beta meanders › Lipoprotein localization factors LolAB › PA1994-like › PA1994-like › Glycolipid_bind 0.64 56.0 4.24e-01 96.2% 65.1%
408891 331.3.1.9 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.64 55.0 4.55e-01 100.0% 56.8%
3281520 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.64 56.0 4.21e-01 98.8% 64.5%
5045702 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.63 51.0 3.60e-01 87.5% 82.0%
1082803 227.1.1.13 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Herpes_DNAp_acc 0.60 50.0 4.06e-01 91.3% 66.7%
5014317 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.60 41.0 4.17e-01 80.0% 71.2%
4022543 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.59 46.0 3.28e-01 82.5% 66.4%
3445177 9.1.1.10 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › VDE 0.59 51.0 3.89e-01 96.2% 58.4%
None — 0.59 50.0 3.37e-01 93.8% 30.8%
3935038 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.58 42.0 4.23e-01 97.5% 78.5%
3359496 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.57 47.0 3.35e-01 95.0% 36.1%
3934686 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 39.0 3.73e-01 72.5% 62.1%
3513352 241.15.1.3 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › SPC25 0.56 49.0 4.41e-01 100.0% 80.0%
3531867 4026.1.1.1 ↗ a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › Rap-GAP_dimer 0.56 43.0 3.29e-01 86.3% 36.1%
5029824 3111.1.1.0 ↗ beta barrels › STT3/PglB/AglB beta-barrel domain › STT3/PglB/AglB beta-barrel domain › STT3/PglB/AglB beta-barrel domain 0.56 48.0 4.26e-01 100.0% 77.6%
3447587 5.1.3.65 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF295 0.55 46.0 3.16e-01 97.5% 45.2%
4029623 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 46.0 2.81e-01 97.5% 29.2%
2491389 5.1.3.19 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Hira 0.54 42.0 3.19e-01 83.7% 42.7%
408353 331.3.1.9 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.53 46.0 3.80e-01 100.0% 57.9%
5083767 10.1.1.35 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_3 0.53 41.0 3.23e-01 86.3% 61.6%
3907200 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 42.0 2.52e-01 92.5% 27.0%
4471307 325.1.6.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Duplicated hybrid motif › Peptidase_M23 0.51 46.0 3.80e-01 100.0% 91.7%
3229763 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.51 43.0 3.10e-01 95.0% 73.8%
3505384 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 41.0 2.86e-01 95.0% 29.1%
3500542 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.51 34.0 3.30e-01 75.0% 61.1%
5056878 5.1.2.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_32N 0.50 41.0 2.89e-01 100.0% 52.6%