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NC_054970.1__YP_010079228.1__KMC58_gp16__00016

Bact-Vir

NC_054970.1__YP_010079228.1__KMC58_gp16__00016

Identity

Accession:
NC_054970 ↗
Kingdom:
phage

Quality

61.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Inbricusvirus› Pseudomonas_phage_inbricus

TaxID: 2048976

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 7-50
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2i9wA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.69 56.0 3.78e-01 95.5% 60.2%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.66 56.0 4.02e-01 100.0% 40.9%
3og5A01 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.66 56.0 4.59e-01 100.0% 52.9%
4jneA03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.66 56.0 4.56e-01 100.0% 62.5%
2qkdA01 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.65 46.0 4.45e-01 90.9% 68.8%
3mb5A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 47.0 3.09e-01 79.5% 61.7%
4osnA00 2.30.29.100 Mainly Beta › Roll › PH-domain like › 0.63 53.0 4.09e-01 100.0% 40.9%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.63 45.0 2.82e-01 88.6% 14.2%
3e05B00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 48.0 3.17e-01 86.4% 24.5%
3ttqA03 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.62 47.0 2.97e-01 84.1% 62.1%
2afsA00 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.62 46.0 2.83e-01 86.4% 12.7%
4qkyA02 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.62 46.0 4.02e-01 100.0% 51.4%
4mh4A02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.61 50.0 4.08e-01 100.0% 97.9%
1vq0A01 3.55.30.10 Alpha Beta › 3-Layer(bab) Sandwich › Hsp33 domain › Hsp33 domain 0.61 49.0 3.22e-01 100.0% 47.6%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.61 43.0 2.81e-01 95.5% 17.4%
4k3cA01 3.10.20.310 Alpha Beta › Roll › Ubiquitin-like (UB roll) › membrane protein fhac 0.60 48.0 4.13e-01 100.0% 54.9%
2xzmJ00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.60 49.0 3.73e-01 93.2% 60.0%
1sqhA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 50.0 3.50e-01 100.0% 68.1%
1nyeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.60 52.0 3.64e-01 100.0% 62.2%
4necC01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 45.0 2.86e-01 81.8% 58.0%
1k8kA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.59 50.0 4.05e-01 100.0% 67.4%
3o3uN03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 45.0 3.43e-01 86.4% 36.9%
1lqvB00 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.59 46.0 3.13e-01 88.6% 52.0%
6tmfM00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.58 46.0 3.62e-01 93.2% 61.8%
2e8eA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.58 48.0 3.54e-01 100.0% 38.6%
2nrqA00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.57 44.0 3.23e-01 93.2% 29.2%
4a55A01 3.10.20.770 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.57 44.0 2.76e-01 95.5% 20.0%
1cx8A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.57 45.0 2.78e-01 93.2% 14.7%
4qclA02 3.30.70.2820 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 45.0 3.60e-01 100.0% 44.1%
4rx6D00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 42.0 3.33e-01 86.4% 42.1%
2ql8A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.56 49.0 3.48e-01 100.0% 62.9%
5a2fA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 3.42e-01 93.2% 37.5%
3up1A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 39.0 3.05e-01 77.3% 74.0%
3hm2A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 44.0 3.08e-01 95.5% 83.6%
1a3wA01 3.40.1380.20 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate Kinase; Chain: A, domain 1 › Pyruvate kinase, C-terminal domain 0.54 46.0 3.15e-01 95.5% 27.1%
1p1lA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 40.0 3.20e-01 86.4% 95.1%
3ce8A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 41.0 3.44e-01 93.2% 46.1%
3e23A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 43.0 2.93e-01 100.0% 29.3%
2znhA03 6.20.40.10 Special › Other non-globular › Porin MspA ribbon fold › 0.52 39.0 3.89e-01 88.6% 93.6%
1gd8A00 3.90.1030.10 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › Ribosomal protein L17 0.52 44.0 3.29e-01 100.0% 39.0%
4cbgD02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 35.0 2.49e-01 75.0% 40.4%
7s7rA01 2.60.40.2860 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 38.0 2.80e-01 86.4% 32.1%
3ramA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 43.0 3.19e-01 100.0% 67.8%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3823551 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.71 57.0 4.15e-01 100.0% 30.3%
1837178 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.69 46.0 3.03e-01 70.5% 56.5%
4021847 2011.1.1.8 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M28 0.68 48.0 2.93e-01 77.3% 13.0%
3454185 207.1.1.57 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRRNT_2,LRR_4,LRR_6,LRR_8 0.68 57.0 3.23e-01 100.0% 35.0%
3483369 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.66 44.0 2.66e-01 70.5% 29.2%
3728856 171.1.1.9 ↗ alpha arrays › RNase III catalytic domain-like › RNase III catalytic domain-like › RNase III catalytic domain-like › Ribonuclease_3, Ribonucleas_3_3 0.65 52.0 3.41e-01 100.0% 76.4%
4933810 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.64 54.0 3.82e-01 100.0% 45.5%
2579238 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.64 54.0 3.78e-01 100.0% 43.2%
4899007 3121.1.1.0 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain 0.63 52.0 4.59e-01 100.0% 62.5%
3823835 304.4.1.78 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › DUF7036 0.63 52.0 4.10e-01 100.0% 43.8%
4345301 1.1.5.44 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › SecDF_P1_head 0.63 49.0 3.41e-01 93.2% 25.0%
4980688 4955.1.1.0 ↗ a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.62 37.0 2.92e-01 97.7% 26.7%
4979212 2011.1.1.0 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases 0.61 47.0 2.83e-01 86.4% 14.3%
4986411 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.61 45.0 2.93e-01 79.5% 58.6%
4898997 3121.1.1.1 ↗ a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA 0.61 48.0 4.26e-01 95.5% 61.1%
None — 0.61 44.0 2.93e-01 79.5% 63.2%
4197190 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.60 49.0 4.58e-01 100.0% 78.3%
4875294 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.60 44.0 2.90e-01 84.1% 78.2%
4954522 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.60 49.0 4.01e-01 100.0% 47.9%
None — 0.60 45.0 2.98e-01 81.8% 63.8%
3982740 5086.1.1.190 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.60 46.0 2.96e-01 84.1% 100.0%
3740450 328.1.1.3 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Rpp20 0.60 45.0 3.64e-01 84.1% 53.3%
3574545 210.1.2.6 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › Phospholip_B 0.59 42.0 2.55e-01 77.3% 57.7%
3598322 2487.1.1.0 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" 0.59 50.0 3.58e-01 100.0% 80.7%
5025539 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.58 42.0 2.78e-01 79.5% 58.0%
4963974 2004.1.1.198 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.58 44.0 2.63e-01 84.1% 88.7%
5031423 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.57 48.0 3.51e-01 97.7% 39.3%
4228205 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.57 48.0 3.49e-01 100.0% 36.4%
324414 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.57 49.0 3.49e-01 100.0% 62.4%
3292891 2003.1.5.121 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DUF1442 0.57 49.0 3.15e-01 97.7% 78.6%
3280179 2004.1.1.552 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T4SS-DNA_transf, TraG-D_C 0.57 43.0 2.49e-01 84.1% 90.7%
3747930 6006.1.1.4 ↗ extended segments › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › Voltage gated calcium channel IQ domain › PF28678 0.56 46.0 3.97e-01 100.0% 62.5%
5078891 1.1.3.2 ↗ beta barrels › cradle loop barrel › RIFT-related › AbrB › MazE_antitoxin 0.56 42.0 4.06e-01 100.0% 72.7%
5056319 177.1.1.0 ↗ alpha bundles › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease › Phospholipase C/P1 nuclease 0.56 45.0 3.12e-01 97.7% 46.5%
4348096 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.56 45.0 3.18e-01 100.0% 26.7%
3687618 304.9.1.79 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PF28976 0.56 43.0 3.05e-01 97.7% 24.2%
3969531 7581.1.1.0 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like 0.55 39.0 2.41e-01 88.6% 83.5%
3932435 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.55 43.0 2.56e-01 86.4% 86.6%
None — 0.55 43.0 2.92e-01 93.2% 25.8%
4054285 5.1.4.139 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.55 43.0 2.50e-01 100.0% 9.6%
4160593 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.54 44.0 3.09e-01 100.0% 26.7%
3255418 2011.1.1.8 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M28 0.54 46.0 2.70e-01 95.5% 17.4%
3618003 389.1.1.112 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › PF29137 0.54 39.0 3.69e-01 100.0% 65.5%
5048993 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 44.0 3.26e-01 97.7% 80.0%
3739406 330.1.1.9 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Dcr1-like_dsRNA-bd_dom 0.52 41.0 3.16e-01 88.6% 81.9%
4247735 2008.1.1.59 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_1 0.52 44.0 2.41e-01 100.0% 20.6%
5004023 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.52 41.0 2.87e-01 95.5% 79.4%
3923319 2484.1.1.13 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.51 45.0 2.84e-01 100.0% 67.2%
5030500 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.51 43.0 3.09e-01 100.0% 83.6%
4938781 2003.1.5.179 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PF30636 0.51 41.0 2.87e-01 95.5% 98.8%
3741228 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.51 45.0 2.54e-01 100.0% 8.6%
3373362 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 46.0 2.52e-01 100.0% 36.6%