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NC_060132.1__YP_010245992.1__L3Y20_gp007__00007

Bact-Vir

NC_060132.1__YP_010245992.1__L3Y20_gp007__00007

Identity

Accession:
NC_060132 ↗
Kingdom:
phage

Quality

81.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nevillevirus› Gordonia_phage_Trax

TaxID: 2591121

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 21-125
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4hkqA04 3.10.20.370 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.68 44.0 5.03e-01 79.0% 89.5%
3gocA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.61 45.0 3.41e-01 88.6% 35.1%
3zhaQ02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.60 41.0 3.85e-01 70.5% 97.7%
1hdhA02 3.30.1120.10 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.59 33.0 3.76e-01 98.1% 72.7%
4kwyA00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.59 51.0 4.65e-01 94.3% 90.5%
4nspA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.58 45.0 3.44e-01 81.9% 42.9%
4npjB02 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.58 44.0 4.03e-01 81.0% 69.0%
2r9yA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.58 41.0 3.66e-01 72.4% 94.5%
3w1eA02 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.58 51.0 4.30e-01 97.1% 77.4%
7pikC01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 44.0 3.44e-01 79.0% 54.1%
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.58 36.0 4.05e-01 73.3% 79.8%
4uv3E01 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.56 49.0 3.99e-01 97.1% 80.3%
2iqiB00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.56 48.0 4.15e-01 96.2% 87.7%
2bhoA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.56 47.0 4.68e-01 94.3% 88.2%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.55 49.0 4.35e-01 97.1% 82.0%
1gydB00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 50.0 3.54e-01 100.0% 81.9%
8gn6A01 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.55 48.0 3.40e-01 99.0% 86.3%
4pswA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.54 47.0 4.32e-01 93.3% 75.2%
1x7dB01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.54 46.0 3.91e-01 92.4% 65.1%
3bghB01 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.54 46.0 3.92e-01 94.3% 92.4%
4q6lA00 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.53 37.0 3.41e-01 72.4% 64.4%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.53 44.0 3.78e-01 89.5% 78.9%
1jmoA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.53 40.0 3.56e-01 80.0% 96.7%
3ga2A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.53 45.0 3.36e-01 89.5% 45.3%
4x30A02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.52 40.0 3.59e-01 80.0% 97.9%
4gf3A00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.52 45.0 4.26e-01 93.3% 83.7%
1omoA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.52 44.0 3.93e-01 92.4% 75.8%
4cvuA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 39.0 3.77e-01 80.0% 94.1%
2w35A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.52 44.0 3.36e-01 89.5% 45.3%
3va7A05 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.52 40.0 4.14e-01 83.8% 99.0%
2i9iA00 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.51 43.0 3.48e-01 95.2% 79.6%
3f1sA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.51 40.0 3.58e-01 83.8% 98.0%
1ex0A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 33.0 3.46e-01 82.9% 71.6%
5i97C00 3.10.450.230 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › VirB8 protein 0.50 35.0 3.21e-01 71.4% 89.1%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4929050 2484.1.1.49 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Hydant_A_N 0.80 47.0 4.18e-01 81.0% 44.3%
3590972 2484.1.1.24 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.78 47.0 4.16e-01 81.9% 44.1%
2153195 2484.5.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RVT_connect 0.77 48.0 4.65e-01 79.0% 57.4%
3327789 2484.1.1.11 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ribosomal_L18p 0.68 48.0 4.57e-01 81.9% 63.3%
3865029 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.66 42.0 4.65e-01 82.9% 78.8%
4944954 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.66 39.0 3.07e-01 81.0% 28.4%
3935471 4292.1.1.0 ↗ a+b two layers › FlaG-like › FlaG-related › FlaG-related 0.65 41.0 4.58e-01 78.1% 78.8%
4932428 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.64 39.0 4.56e-01 81.0% 90.0%
4987631 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.62 44.0 3.49e-01 93.3% 37.7%
4945072 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.62 48.0 3.44e-01 81.0% 36.8%
3628460 3308.1.1.0 ↗ beta duplicates or obligate multimers › periplasmic lysozyme inhibitor of I-type lysozyme-like › periplasmic lysozyme inhibitor of I-type lysozyme › periplasmic lysozyme inhibitor of I-type lysozyme 0.60 44.0 5.03e-01 77.1% 100.0%
3584223 5.1.5.64 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DCAF17 0.60 49.0 3.19e-01 88.6% 31.5%
5062621 2484.1.1.21 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › BcrAD_BadFG 0.58 46.0 2.78e-01 81.9% 46.5%
3788156 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.58 44.0 3.19e-01 81.0% 34.2%
3259935 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.58 44.0 3.36e-01 81.9% 41.7%
3986085 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.57 43.0 4.58e-01 81.0% 87.4%
3995343 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 44.0 4.06e-01 81.0% 77.8%
3887329 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 45.0 4.09e-01 82.9% 75.7%
3569759 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 45.0 3.82e-01 82.9% 62.4%
3401482 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.57 44.0 2.90e-01 81.0% 24.1%
3704066 2484.1.1.176 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Hexokinase_1+Hexokinase_2 0.57 42.0 2.76e-01 96.2% 18.0%
3518469 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.57 47.0 4.37e-01 89.5% 80.0%
5069545 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.56 44.0 3.47e-01 81.9% 69.8%
3892401 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.56 44.0 3.88e-01 82.9% 80.6%
3510735 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.56 43.0 3.95e-01 81.0% 76.3%
3742583 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.56 43.0 3.31e-01 81.9% 42.9%
3930525 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.56 43.0 3.87e-01 81.0% 70.3%
4934684 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.56 43.0 4.14e-01 81.0% 73.3%
4423027 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.55 43.0 3.60e-01 83.8% 54.1%
4124957 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.55 43.0 3.35e-01 81.9% 47.3%
3972242 7503.1.1.0 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain 0.55 50.0 4.26e-01 99.0% 92.1%
3913372 5.1.4.242 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PEP5_VPS11_N 0.55 49.0 3.40e-01 97.1% 43.6%
4142588 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.55 43.0 3.51e-01 81.9% 47.0%
4416209 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.54 42.0 3.22e-01 81.9% 43.8%
4947915 2484.1.1.71 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RACo_C_ter 0.54 41.0 3.58e-01 81.9% 81.2%
3179848 241.15.1.2 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain › PI31_Prot_N 0.54 48.0 4.43e-01 99.0% 77.0%
4256745 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.53 44.0 4.08e-01 87.6% 82.3%
4009844 7503.1.1.18 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › PF30449 0.53 45.0 4.21e-01 94.3% 74.6%
5044528 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.53 40.0 3.22e-01 81.0% 70.0%
3811861 5.1.3.6 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1 0.53 44.0 3.13e-01 93.3% 47.7%
3350511 844.1.1.6 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › GRDP_C 0.53 40.0 3.34e-01 90.5% 45.3%
4027162 5.1.11.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed 0.53 48.0 3.18e-01 100.0% 67.5%
4973844 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.52 40.0 3.46e-01 81.9% 52.1%
5020013 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.52 40.0 3.50e-01 80.0% 67.3%
None — 0.52 47.0 3.37e-01 100.0% 71.1%
4139532 3692.1.1.1 ↗ a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › OCD_Mu_crystall 0.52 44.0 4.03e-01 92.4% 74.8%
4931157 2484.1.1.79 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Raco_middle 0.51 39.0 3.41e-01 81.9% 52.1%
223967 2484.1.1.79 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Raco_middle 0.51 39.0 3.39e-01 81.9% 51.8%
5053180 2484.1.1.79 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Raco_middle 0.51 39.0 3.40e-01 81.9% 52.1%
4059717 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.51 38.0 4.13e-01 89.5% 98.8%
3925441 5087.2.1.0 ↗ beta meanders › Lipovitellin-phosvitin complex › Lipovitellin LV-1N › Lipovitellin LV-1N 0.51 42.0 3.11e-01 88.6% 93.2%
3305439 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.51 44.0 3.12e-01 98.1% 53.3%
3235753 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.50 44.0 2.90e-01 96.2% 57.2%
2494164 11.2.1.44 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2_SHIP1-2_2nd 0.50 42.0 4.11e-01 90.5% 92.2%
3282130 3692.1.1.0 ↗ a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain 0.50 42.0 3.88e-01 92.4% 74.1%