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LacPavin_0818_WC40_scaffold_575784_prodigal-single.1__X__X__00136

Bact-Vir

LacPavin_0818_WC40_scaffold_575784_prodigal-single.1__X__X__00136

Identity

Kingdom:
phage

Quality

78.1 mean pLDDT

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 3-180
PDB
Pfam (3)
AccessionNameScoreE-valueQ covHMM cov
PF13177.13 best DNA_pol3_delta2 88.1 9.40e-25 91.0% 94.4%
PF00004.36 AAA 29.7 1.10e-06 79.8% 95.4%
PF13401.13 AAA_22 27.7 4.10e-06 74.2% 89.2%
D2 high residues 185-245
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF22608.3 best DNAX_ATPase_lid 28.6 1.30e-06 68.8% 73.5%
D3 high residues 247-354
PDB
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1jr3C02 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.86 80.0 7.70e-01 100.0% 98.4%
3zh9B03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.84 77.0 7.31e-01 98.1% 100.0%
5jj6B01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.67 34.0 3.65e-01 96.3% 56.2%
1vb5A01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.64 51.0 5.46e-01 100.0% 98.9%
3uonA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.57 39.0 2.88e-01 70.4% 89.6%
8etcb01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.57 47.0 4.23e-01 88.9% 90.4%
1lm3B00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.57 46.0 4.70e-01 98.1% 89.6%
1dtoA01 1.10.287.30 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › E2 (early) protein, N terminal domain, subdomain 1 0.56 44.0 4.51e-01 94.4% 88.2%
1aepA00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.56 46.0 4.09e-01 89.8% 68.6%
1y4cA03 1.20.120.660 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › IL-4 antagonist (De novo design) like domain 0.55 45.0 4.46e-01 96.3% 82.3%
1gzmA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.55 39.0 2.76e-01 74.1% 39.6%
3rrcB01 1.20.1310.20 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Duffy-antigen binding domain 0.55 44.0 3.99e-01 90.7% 74.1%
4p9tA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 44.0 4.24e-01 96.3% 78.3%
7e4mA01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.54 46.0 3.55e-01 97.2% 56.0%
2w3cA02 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.54 41.0 3.07e-01 81.5% 51.7%
2yjkC00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.54 41.0 3.58e-01 78.7% 83.4%
2okuA00 1.20.120.470 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Acyl-CoA dehydrogenase, C-terminal domain 0.53 36.0 3.52e-01 70.4% 63.9%
2xq0A03 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.53 38.0 3.38e-01 74.1% 81.5%
5ux1D00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 46.0 3.71e-01 92.6% 73.1%
1sj8A02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.53 37.0 3.61e-01 73.1% 67.2%
2wl8C00 1.20.120.900 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pex19, mPTS binding domain 0.53 38.0 3.88e-01 82.4% 76.1%
2ot4A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 37.0 3.75e-01 72.2% 72.9%
3axjB02 1.20.58.200 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Translin; domain 2 0.52 37.0 4.04e-01 85.2% 92.9%
4egwA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.52 39.0 3.76e-01 76.9% 84.9%
3ok8A00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.52 37.0 3.00e-01 75.0% 82.2%
1dc1A02 1.10.238.90 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Restriction endonuclease BsobI, helical domain 0.52 40.0 4.40e-01 87.0% 100.0%
6adqG01 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.52 45.0 3.84e-01 96.3% 73.0%
2jx0A00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.52 43.0 4.10e-01 95.4% 75.6%
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.52 46.0 3.12e-01 99.1% 84.2%
2b0hA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.51 43.0 4.15e-01 97.2% 78.9%
1blwC00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.51 39.0 3.61e-01 80.6% 85.1%
4jkzA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 46.0 3.89e-01 100.0% 66.5%
3lsjA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 44.0 4.03e-01 100.0% 84.3%
1z9hA03 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.51 37.0 3.39e-01 77.8% 78.1%
3cegA00 3.10.110.10 Alpha Beta › Roll › Ubiquitin Conjugating Enzyme › Ubiquitin Conjugating Enzyme 0.50 40.0 2.94e-01 84.3% 74.3%
3nvoB02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.50 37.0 3.67e-01 76.9% 83.6%
2dg8D00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.50 43.0 3.81e-01 100.0% 65.9%
7dl9A01 1.20.1250.20 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › MFS general substrate transporter like domains 0.50 38.0 3.18e-01 80.6% 76.3%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031429 138.1.1.3 alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNApol3-delta_C 0.82 71.0 7.02e-01 93.5% 98.3%
3239393 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.61 49.0 4.87e-01 94.4% 81.8%
3676716 5001.1.1.134 alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › PSS 0.59 39.0 2.83e-01 77.8% 23.5%
4028931 4250.1.1.1 alpha bundles › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy_binding 0.59 47.0 4.11e-01 87.0% 69.7%
3827313 633.4.1.0 alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.58 40.0 4.04e-01 71.3% 70.0%
3941867 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.57 51.0 4.15e-01 100.0% 73.8%
3506105 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.57 42.0 3.48e-01 75.0% 73.0%
3626614 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.57 42.0 3.27e-01 75.0% 60.0%
3233929 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.57 41.0 3.20e-01 74.1% 58.7%
3289100 1174.1.1.1 alpha complex topology › Potassium channel TMEM175 › Potassium channel TMEM175 › Potassium channel TMEM175 › TMEM175 0.57 52.0 4.14e-01 98.1% 84.4%
3988700 5082.1.1.1 alpha bundles › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation efflux protein transmembrane domain-like › Cation_efflux 0.56 50.0 4.12e-01 99.1% 84.1%
4220767 601.25.1.1 alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.56 49.0 4.28e-01 97.2% 72.1%
3463388 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.56 40.0 3.58e-01 73.1% 55.9%
4961644 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.55 49.0 3.58e-01 100.0% 62.6%
3578011 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 43.0 2.91e-01 83.3% 23.0%
3582053 601.1.2.64 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › Talin_VBS2 0.55 46.0 4.70e-01 96.3% 93.3%
4021428 5050.1.1.0 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.55 41.0 3.30e-01 78.7% 78.6%
3687229 5050.1.1.1 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.55 37.0 2.87e-01 74.1% 30.2%
4086496 601.25.1.1 alpha bundles › Four-helical up-and-down bundle › TrmE connector domain › TrmE connector domain › MnmE_helical 0.55 48.0 4.21e-01 96.3% 71.2%
3906366 5057.1.1.1 alpha bundles › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neurotransmitter-gated ion-channel transmembrane pore › Neur_chan_memb 0.55 47.0 4.10e-01 93.5% 90.6%
4116722 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.54 48.0 3.57e-01 100.0% 64.7%
5014458 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.54 41.0 3.38e-01 78.7% 76.3%
3265013 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.54 40.0 3.19e-01 75.9% 84.7%
3283218 5059.1.1.1 alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA 0.54 48.0 3.66e-01 100.0% 72.1%
4078372 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.54 38.0 3.20e-01 74.1% 83.6%
4023733 4250.1.1.1 alpha bundles › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy-binding-like domain, N-terminal subdomain › Duffy_binding 0.54 43.0 3.75e-01 87.0% 71.8%
3962027 191.1.1.0 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain 0.54 47.0 4.36e-01 98.1% 92.1%
3731713 5050.1.1.1 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.54 41.0 3.15e-01 81.5% 54.6%
3992063 601.1.2.79 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › TMEM126_like 0.54 39.0 3.19e-01 76.9% 71.4%
4550520 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.54 41.0 3.32e-01 79.6% 69.0%
3959787 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.54 40.0 4.01e-01 94.4% 76.5%
3247321 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.53 40.0 3.30e-01 77.8% 81.5%
3708426 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 42.0 3.75e-01 95.4% 60.7%
5084032 5050.1.1.53 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MarC 0.53 42.0 3.40e-01 86.1% 83.1%
4102360 601.17.1.1 alpha bundles › Four-helical up-and-down bundle › Group V grass pollen allergen › Group V grass pollen allergen › Pollen_allerg_2 0.53 44.0 4.29e-01 93.5% 82.5%
4974774 1075.1.1.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain 0.53 46.0 3.70e-01 100.0% 78.9%
3565064 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.52 36.0 2.31e-01 71.3% 20.6%
4960491 5050.1.1.9 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.52 38.0 3.07e-01 76.9% 40.9%
3781029 109.4.1.426 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CAS_CSE1 0.52 40.0 3.04e-01 84.3% 36.0%
3507740 5050.1.1.1 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.51 38.0 2.95e-01 78.7% 67.8%
2714061 5054.1.1.59 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans, Ion_trans_2 0.51 38.0 3.09e-01 96.3% 41.4%
3690142 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 42.0 2.96e-01 89.8% 37.5%
3954896 3636.1.1.0 a+b two layers › XPD arch domain › XPD arch domain › XPD arch domain 0.51 42.0 3.91e-01 88.0% 95.6%
4889167 5054.1.1.8 alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.51 38.0 3.19e-01 96.3% 45.5%
3515231 633.7.1.0 alpha bundles › Bromodomain-like › Bacillus cereus metalloprotein-like › Bacillus cereus metalloprotein-like 0.50 35.0 3.20e-01 79.6% 52.0%
3241743 109.24.1.2 alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 › DHR-2_Lobe_C 0.50 39.0 3.64e-01 84.3% 84.3%
4522145 5050.1.1.54 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Mntp 0.50 40.0 3.50e-01 89.8% 84.4%
3249529 601.1.2.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.50 43.0 4.01e-01 93.5% 80.0%
4015531 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.50 39.0 2.57e-01 83.3% 21.1%
3249523 601.1.2.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.50 44.0 4.24e-01 97.2% 85.8%