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NC_049344.1__YP_009965292.1__HYO69_gp14__00014

Bact-Vir

NC_049344.1__YP_009965292.1__HYO69_gp14__00014

Identity

Accession:
NC_049344 ↗
Kingdom:
phage

Quality

69.4 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 2-112
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF05840.20 best Phage_GPA 106.0 3.00e-30 67.6% 24.0%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4173640 304.55.1.27 a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Phage_GPA 0.95 85.0 6.08e-01 100.0% 37.5%
4170426 304.8.1.70 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › Phage_GPA 0.94 84.0 5.94e-01 100.0% 36.1%
4511949 304.48.1.74 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Phage_GPA 0.93 83.0 6.19e-01 100.0% 42.9%
D2 high residues 125-219
PDB
D3 medium residues 337-388
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v1xA03 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.79 58.0 4.49e-01 88.5% 37.3%
1o22A00 3.90.1000.10 Alpha Beta › Alpha-Beta Complex › Orphan Protein Tm0875; Chain: A; › Hypothetical protein TM0875 0.74 39.0 2.74e-01 80.8% 17.4%
1ni5A02 1.20.59.20 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › 0.74 65.0 5.53e-01 100.0% 72.1%
3vkhB07 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.69 63.0 4.21e-01 100.0% 65.6%
1dn1B00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 54.0 3.54e-01 88.5% 26.1%
2fi1A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.68 56.0 5.20e-01 90.4% 79.7%
3bz6A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.63 43.0 3.65e-01 86.5% 42.2%
6p10B02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.62 54.0 4.51e-01 100.0% 58.2%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.60 39.0 3.75e-01 84.6% 56.5%
3td9A02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 47.0 3.63e-01 100.0% 90.7%
3ajvC02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.59 50.0 4.21e-01 96.2% 90.1%
3zhiA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.59 47.0 4.38e-01 96.2% 71.2%
8a3pA01 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.59 50.0 3.45e-01 98.1% 93.2%
2w00A02 3.90.640.50 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.58 48.0 4.37e-01 96.2% 94.5%
2qy6A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 46.0 2.96e-01 86.5% 34.0%
3oulA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.58 47.0 3.20e-01 96.2% 36.9%
4nhxA01 2.60.120.620 Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain 0.57 48.0 3.24e-01 100.0% 44.6%
2kxtA01 2.60.60.30 Mainly Beta › Sandwich › Lipoxygenase-1 › sav2460 like domains 0.57 45.0 3.14e-01 86.5% 91.7%
4a8jA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 41.0 2.64e-01 78.8% 92.4%
2wdtC02 3.30.1490.420 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ubiquitin carboxyl-terminal hydrolase, domain 2 0.57 36.0 2.98e-01 75.0% 33.7%
4qa8A00 2.50.20.20 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.56 47.0 3.22e-01 96.2% 91.0%
1yqeA01 3.40.630.50 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › AF0625-like 0.56 48.0 3.37e-01 100.0% 91.9%
4ycaB01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 46.0 3.35e-01 94.2% 93.7%
4qb5D00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.55 45.0 3.49e-01 94.2% 88.0%
1gnlA01 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 44.0 3.26e-01 88.5% 50.4%
3na2A00 3.40.1570.20 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › 0.55 43.0 3.28e-01 92.3% 68.1%
1br2A04 1.20.58.530 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 42.0 2.92e-01 82.7% 63.5%
3ct8A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.54 44.0 3.35e-01 92.3% 84.2%
4npsA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 35.0 3.42e-01 78.8% 60.3%
4uuwA01 3.40.980.10 Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › MoaB/Mog-like domain 0.54 41.0 2.87e-01 92.3% 25.0%
5jldA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 41.0 2.70e-01 82.7% 90.3%
3oc4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 40.0 3.16e-01 84.6% 71.7%
4pg4A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.53 45.0 3.24e-01 98.1% 56.5%
6ui4A02 1.20.58.530 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 41.0 2.90e-01 82.7% 56.8%
3aqlA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.53 42.0 3.14e-01 90.4% 54.3%
3hr8A02 3.30.250.10 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › RecA protein, C-terminal domain 0.53 41.0 3.72e-01 90.4% 78.7%
4trtA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.53 39.0 3.06e-01 80.8% 74.8%
4hz9B00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 41.0 3.33e-01 98.1% 97.6%
2w9mB03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.51 41.0 3.72e-01 100.0% 95.1%
2ejwA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.51 43.0 3.22e-01 98.1% 59.7%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.51 34.0 3.57e-01 76.9% 80.4%
3wz2B00 3.40.50.10900 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › PAC-like subunit 0.51 41.0 2.77e-01 94.2% 33.8%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4195481 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.76 67.0 5.59e-01 100.0% 68.9%
4388719 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.75 65.0 5.49e-01 100.0% 68.9%
3164171 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.75 65.0 5.49e-01 100.0% 68.9%
3970061 2006.1.1.0 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.75 58.0 3.71e-01 98.1% 19.5%
7035 508.1.1.2 a+b three layers › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › Protein interacting with HSP90 1 (Pih1) N-terminal domain › DUF3855 0.74 39.0 2.74e-01 80.8% 17.4%
3510488 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.74 65.0 5.46e-01 100.0% 68.9%
4659415 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.74 65.0 5.44e-01 100.0% 68.9%
3387987 3018.1.1.0 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like 0.74 62.0 5.13e-01 96.2% 54.7%
4429100 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.72 63.0 5.30e-01 100.0% 68.9%
4061974 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.71 63.0 5.28e-01 100.0% 68.9%
3863674 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.70 48.0 5.31e-01 96.2% 95.0%
4306304 391.1.2.1 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › VWC 0.70 45.0 4.32e-01 92.3% 56.7%
4471230 223.10.1.1 a+b three layers › Profilin-like › Stage II sporulation protein SA › Stage II sporulation protein SA › SpoIISA_toxin 0.68 58.0 4.22e-01 100.0% 40.0%
4220620 3018.1.1.1 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.66 56.0 4.79e-01 100.0% 70.0%
4141443 3018.1.1.0 a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like 0.66 58.0 4.67e-01 100.0% 57.7%
2834165 3740.1.1.1 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_N,FrhB_FdhB_C 0.66 52.0 3.30e-01 88.5% 78.1%
3576797 391.1.2.9 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › Fn1_2 0.65 41.0 4.56e-01 92.3% 97.1%
4943857 3740.1.1.4 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.64 53.0 3.33e-01 92.3% 75.6%
3618015 394.1.1.1 few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.64 36.0 3.81e-01 86.5% 62.2%
3998974 391.1.2.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.63 41.0 4.46e-01 92.3% 97.1%
3586538 148.1.3.35 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › TOR1A_C 0.63 57.0 4.63e-01 100.0% 66.0%
4032337 4964.1.1.0 alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I 0.62 42.0 2.91e-01 71.2% 22.4%
4669226 316.1.1.26 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › SMODS 0.61 44.0 3.19e-01 86.5% 25.6%
3612607 316.1.1.25 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.60 48.0 3.45e-01 90.4% 67.7%
3560927 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.60 38.0 4.04e-01 86.5% 94.3%
3385974 7541.1.1.0 a/b three-layered sandwiches › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins › Molybdenum cofactor biosynthesis proteins 0.59 50.0 3.85e-01 98.1% 87.7%
4954476 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 49.0 3.72e-01 96.2% 95.6%
4969883 225.2.1.0 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › Uncharacterized protein DIP2311 middle domain › Uncharacterized protein DIP2311 middle domain 0.59 40.0 2.62e-01 71.2% 40.0%
3967527 4216.1.1.1 a+b duplicates or obligate multimers › Heme iron utilization protein-like › Heme iron utilization protein-like › Heme iron utilization protein-like › HemS 0.59 45.0 3.23e-01 86.5% 67.5%
None 0.58 50.0 3.01e-01 98.1% 88.2%
4990499 2003.1.5.32 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Cons_hypoth95 0.58 39.0 2.53e-01 71.2% 16.0%
5035606 192.29.1.304 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Exosortase_EpsH 0.58 52.0 3.66e-01 100.0% 61.9%
3416800 391.1.1.12 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › FnI_RECK 0.58 39.0 4.23e-01 92.3% 100.0%
4017719 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.57 45.0 3.50e-01 88.5% 50.0%
3969550 2003.1.3.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain 0.57 49.0 2.88e-01 98.1% 83.8%
5028765 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.56 45.0 3.25e-01 88.5% 70.0%
4944961 4121.1.1.19 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › PF27230 0.56 38.0 2.33e-01 71.2% 48.5%
4392322 3239.1.1.1 alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.56 47.0 2.97e-01 96.2% 42.0%
1790167 2.1.1.97 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › ID 0.56 37.0 3.57e-01 80.8% 61.0%
3286598 2498.2.1.0 mixed a+b and a/b › Zincin-like › beta-N-acetylhexosaminidase-like domain › beta-N-acetylhexosaminidase-like domain 0.55 47.0 3.33e-01 100.0% 79.4%
3999704 391.1.2.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.55 45.0 3.68e-01 98.1% 64.8%
4839785 389.2.1.1 few secondary structure elements › EGF-like › Serine protease inhibitors › Serine protease inhibitors › TIL 0.54 42.0 3.61e-01 98.1% 51.1%
146331 211.1.1.0 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.54 35.0 3.53e-01 80.8% 65.4%
4948506 2003.1.3.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.54 45.0 2.73e-01 96.2% 86.9%
3506125 304.48.1.0 a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.54 41.0 3.27e-01 88.5% 40.0%
5012802 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 43.0 3.62e-01 92.3% 89.5%
3584393 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.53 44.0 3.20e-01 98.1% 43.4%
5077504 3239.1.1.1 alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.53 45.0 2.79e-01 100.0% 32.3%
4014848 226.1.1.0 a+b two layers › POZ domain › POZ domain › POZ domain 0.53 39.0 2.81e-01 88.5% 31.3%
3286555 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 41.0 3.27e-01 100.0% 40.9%
3900629 101.1.8.0 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.52 39.0 3.04e-01 86.5% 51.5%
4363149 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 42.0 2.34e-01 98.1% 18.2%
3767492 2004.1.1.16 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.52 44.0 2.99e-01 100.0% 71.2%
4939039 3740.1.1.4 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.51 38.0 2.68e-01 88.5% 22.3%
4025997 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.51 39.0 2.80e-01 96.2% 54.3%
4931543 3740.1.1.4 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.51 37.0 2.52e-01 88.5% 18.6%
4659258 2003.1.5.51 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TPMT 0.51 41.0 2.86e-01 100.0% 92.6%
4938468 3740.1.1.4 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.51 38.0 2.51e-01 88.5% 40.4%
5072831 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.50 44.0 4.19e-01 100.0% 98.4%