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NC_041872.1__YP_009594079.1__FDG89_gp23__00023

Bact-Vir

NC_041872.1__YP_009594079.1__FDG89_gp23__00023

Identity

Accession:
NC_041872 ↗
Kingdom:
phage

Quality

74.5 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 medium residues 47-103
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7bqiA01 1.20.58.900 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › RUN domain 0.76 51.0 3.70e-01 70.2% 26.5%
4ye6A01 1.10.8.1290 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutaminyl-tRNA synthetase, non-specific RNA binding region part 1, domain 1 0.75 52.0 4.20e-01 73.7% 39.4%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.74 57.0 4.73e-01 87.7% 47.1%
2q0oC00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.72 58.0 5.08e-01 87.7% 59.3%
1gs0A01 1.20.142.10 Mainly Alpha › Up-down Bundle › Poly(ADP-ribose) Polymerase; domain 1 › Poly(ADP-ribose) polymerase, regulatory domain 0.72 46.0 3.53e-01 86.0% 29.5%
3unbF00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 53.0 3.48e-01 80.7% 39.3%
1t11A02 1.10.3120.10 Mainly Alpha › Orthogonal Bundle › Trigger factor, domain 2 › Trigger factor, C-terminal domain 0.69 51.0 3.68e-01 82.5% 27.1%
2lrmA00 1.10.890.30 Mainly Alpha › Orthogonal Bundle › 10k-s Protein, Hypothetical Protein A; Chain A › YmgD protein 0.68 46.0 4.10e-01 77.2% 48.8%
4mtxD00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.67 53.0 4.53e-01 87.7% 73.7%
2qvwB05 1.10.1740.150 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › 0.67 46.0 4.14e-01 71.9% 55.3%
3f2bA05 6.10.50.10 Special › Helix non-globular › Insulin-like, subunit E › 0.62 41.0 4.31e-01 71.9% 81.2%
2no4A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.62 47.0 4.33e-01 87.7% 64.0%
1cbyA00 3.40.198.10 Alpha Beta › 3-Layer(aba) Sandwich › Delta-endotoxin CytB › Delta-endotoxin CytB-like 0.60 40.0 2.76e-01 70.2% 43.6%
2oqtD00 3.40.930.10 Alpha Beta › 3-Layer(aba) Sandwich › Mannitol-specific EII; Chain A › Mannitol-specific EII; Chain A 0.59 46.0 3.38e-01 86.0% 31.4%
3sqnA02 1.10.1790.40 Mainly Alpha › Orthogonal Bundle › PTS-regulatory domain, PRD › 0.58 44.0 3.52e-01 82.5% 66.9%
2blfB01 1.10.760.10 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain 0.55 36.0 3.55e-01 70.2% 60.3%
4j0eA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 44.0 3.03e-01 87.7% 57.9%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5082532 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.85 65.0 6.03e-01 84.2% 65.7%
5057198 1073.1.1.0 alpha arrays › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) › Mitochondrial calcium uniporter (MCU) 0.78 62.0 4.66e-01 84.2% 78.5%
3848406 4193.1.1.1 alpha arrays › RUN domain › RUN domain › RUN domain › RUN 0.78 64.0 4.45e-01 89.5% 28.3%
3212004 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.77 57.0 4.00e-01 89.5% 26.5%
3449084 622.4.1.0 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related 0.76 61.0 4.96e-01 87.7% 51.4%
4014515 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.74 60.0 5.04e-01 87.7% 95.8%
3436965 3711.1.1.0 alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.74 62.0 5.17e-01 91.2% 62.1%
3592509 3273.1.1.0 alpha arrays › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins 0.70 59.0 4.56e-01 96.5% 42.4%
3736710 605.1.1.0 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.70 55.0 4.85e-01 96.5% 57.6%
4671917 547.1.1.1 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › GlutR_dimer 0.70 61.0 4.86e-01 98.2% 50.4%
2075033 3787.1.1.0 alpha bundles › HAD superfamily helical bundle insertion domain 0.69 53.0 4.77e-01 82.5% 60.8%
4010395 622.4.1.26 alpha bundles › YvfG-like › Mite allergen Der p 5-related › Mite allergen Der p 5-related › HisKA 0.68 54.0 5.05e-01 87.7% 75.7%
5054184 3273.1.1.0 alpha arrays › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins › Filamentous archaeal viruses coat proteins 0.68 52.0 4.32e-01 87.7% 45.5%
2556039 540.1.1.1 few secondary structure elements › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › COX6B 0.68 54.0 4.59e-01 94.7% 53.9%
4960489 3602.1.1.0 alpha bundles › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain › Kinase suppressor of Ras 1 helical hairpin domain 0.64 47.0 4.42e-01 78.9% 71.4%
3309441 547.1.1.0 alpha duplicates or obligate multimers › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain › Glutamyl tRNA-reductase dimerization domain 0.63 48.0 4.09e-01 80.7% 48.9%
D2 medium residues 104-195
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3swhA01 1.10.357.50 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.77 52.0 4.25e-01 75.0% 38.8%
6wh0A01 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.75 42.0 3.50e-01 72.8% 33.6%
3fb2A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 38.0 3.63e-01 75.0% 50.5%
1aj3A00 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 37.0 3.71e-01 72.8% 56.1%
4nrjB01 3.90.20.10 Alpha Beta › Alpha-Beta Complex › Hemagglutinin Ectodomain; Chain B › 0.60 39.0 3.23e-01 75.0% 37.3%
3nvoB02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.60 40.0 3.75e-01 71.7% 55.2%
3bqkA02 1.20.1310.20 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Duffy-antigen binding domain 0.60 43.0 3.61e-01 75.0% 65.2%
2uuiA00 1.20.120.550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Membrane associated eicosanoid/glutathione metabolism-like domain 0.59 43.0 3.60e-01 75.0% 77.4%
3lbxB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 40.0 3.87e-01 75.0% 61.7%
3sjqC00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 38.0 4.04e-01 70.7% 80.0%
1oo0A00 3.30.1560.10 Alpha Beta › 2-Layer Sandwich › Mago nashi protein › Mago nashi 0.56 41.0 3.59e-01 78.3% 65.3%
2efkA01 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.55 39.0 2.84e-01 75.0% 71.0%
4nqiD00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.54 42.0 3.13e-01 82.6% 67.7%
3whjA00 6.10.140.1710 Special › Helix non-globular › Helix Hairpins › 0.54 38.0 3.58e-01 72.8% 65.8%
1zkeA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 39.0 4.16e-01 77.2% 100.0%
3ic9A02 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.53 34.0 3.83e-01 71.7% 87.1%
1quuA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 37.0 3.36e-01 75.0% 55.6%
2xseA00 1.20.120.1440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › JBP1, DNA-binding domain 0.52 37.0 3.09e-01 73.9% 81.8%
1ij5A01 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 36.0 3.89e-01 73.9% 89.5%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3358852 3755.4.1.62 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › PF31016 0.70 50.0 4.17e-01 75.0% 45.2%
3577937 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.63 45.0 4.21e-01 75.0% 61.7%
3993655 1008.1.1.0 alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain 0.63 44.0 3.71e-01 71.7% 96.0%
3586089 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.62 47.0 3.77e-01 79.3% 90.6%
3511224 605.1.1.122 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › GCP_C_terminal 0.61 45.0 3.11e-01 78.3% 69.7%
3542442 5038.2.1.1 alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like › MAPEG 0.60 43.0 3.77e-01 75.0% 88.6%
3193726 101.1.2.267 alpha arrays › HTH › HTH › winged helix domain › Nse4_C 0.60 47.0 4.03e-01 82.6% 83.4%
5050984 180.1.1.0 alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase 0.59 43.0 3.53e-01 75.0% 97.0%
2673302 174.1.1.1 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.59 42.0 4.02e-01 79.3% 64.2%
3978419 5058.1.1.2 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › MS_channel_1st 0.59 44.0 4.00e-01 81.5% 66.2%
3553628 109.4.1.120 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Kinetochor_Ybp2 0.58 44.0 2.96e-01 79.3% 52.9%
3597297 3157.1.1.0 alpha arrays › Kinetoplastid membrane protein 11 › Kinetoplastid membrane protein 11 › Kinetoplastid membrane protein 11 0.58 41.0 4.31e-01 73.9% 91.3%
5081618 5086.1.1.0 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.57 40.0 3.64e-01 71.7% 55.0%
3800197 1021.1.1.0 a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.57 36.0 3.66e-01 77.2% 64.4%
3625044 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.57 41.0 3.99e-01 76.1% 100.0%
3736821 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.56 41.0 3.33e-01 75.0% 55.2%
1790170 1050.1.1.0 alpha arrays › BID domain of Bartonella effector protein (Bep) › BID domain of Bartonella effector protein (Bep) › BID domain of Bartonella effector protein (Bep) 0.55 39.0 3.41e-01 73.9% 86.1%
3496957 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.55 39.0 2.36e-01 72.8% 65.0%
3929630 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.55 39.0 3.31e-01 75.0% 69.7%
4420423 5094.1.1.1 a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › OmpH 0.55 39.0 3.32e-01 75.0% 45.2%
3708365 5058.1.1.5 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › DUF6787 0.54 37.0 3.59e-01 70.7% 76.2%
4496758 5050.1.1.86 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › LysE 0.54 36.0 2.79e-01 71.7% 30.7%
3399979 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.54 39.0 3.41e-01 76.1% 97.9%
3887929 174.1.1.1 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.54 38.0 3.55e-01 79.3% 55.8%
3906191 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.54 39.0 3.25e-01 75.0% 71.0%
4210734 632.22.1.1 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.53 38.0 3.65e-01 73.9% 75.2%
3916642 192.2.1.56 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › KIF9 0.53 40.0 3.43e-01 79.3% 94.7%
3526672 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.53 41.0 2.68e-01 82.6% 48.8%
4012948 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.53 41.0 3.49e-01 83.7% 52.9%
3781132 3755.4.1.48 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › V_ATPase_I 0.53 37.0 3.14e-01 72.8% 99.3%
3999587 3755.4.1.48 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › V_ATPase_I 0.52 37.0 3.13e-01 73.9% 70.3%
3193740 3924.1.1.1 alpha complex topology › Sterol uptake control protein 2 › Sterol uptake control protein 2 › Sterol uptake control protein 2 › Fungal_trans_2 0.52 43.0 2.94e-01 93.5% 72.0%
3225949 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.52 37.0 3.19e-01 73.9% 99.3%
3441963 605.1.1.222 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › DUF4220 0.52 39.0 3.63e-01 80.4% 91.3%
3187973 603.1.1.0 alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.52 40.0 2.65e-01 84.8% 44.4%
3375405 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.51 36.0 3.07e-01 72.8% 99.3%
3693045 101.1.2.88 alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.51 41.0 3.46e-01 85.9% 52.3%
3808845 5086.1.1.90 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › V_ATPase_I 0.51 36.0 3.06e-01 72.8% 99.3%
3697150 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 40.0 3.43e-01 85.9% 54.0%
3168929 4323.1.1.1 alpha bundles › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › helical bundle domain in vacuolar ATP synthase subunit C › V_ATPase_I 0.50 36.0 2.97e-01 75.0% 67.4%
4269300 4207.1.1.75 alpha duplicates or obligate multimers › Mediator hinge subcomplex-like › Mediator hinge subcomplex-like › RNA polymerase II holoenzyme component SRB7 (MED21) › HIG_1_N 0.50 36.0 3.26e-01 75.0% 56.0%