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OR354834.1__WNM53211.1__CoNPh11_CDS0154__00152

Bact-Vir

OR354834.1__WNM53211.1__CoNPh11_CDS0154__00152

Identity

Accession:
OR354834 ↗
Kingdom:
phage

Quality

92.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Sextaecvirus› Staphylococcus_phage_S-CoN_Ph11

TaxID: 3076567

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 62-191
PDB
Domain cluster: rep: OQ326496.2__WDQ45493.1__X__00095__D315-465
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07733.19 best DNA_pol3_alpha 68.8 8.10e-19 95.4% 36.9%
D2 high residues 584-660
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3f2bA08 1.10.150.870 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.69 61.0 5.05e-01 98.7% 75.9%
3mk7C03 1.10.760.10 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain 0.60 40.0 3.88e-01 70.1% 100.0%
1cseI00 3.30.10.10 Alpha Beta › 2-Layer Sandwich › Trypsin Inhibitor V; Chain A › Trypsin Inhibitor V, subunit A 0.56 37.0 3.97e-01 87.0% 84.1%
1l9lA00 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.55 39.0 3.98e-01 74.0% 100.0%
2qkmB01 1.10.10.1050 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Dcp2, box A domain 0.52 42.0 3.86e-01 88.3% 82.4%
3sjqC00 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 30.0 3.03e-01 75.3% 55.0%
2qy6A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 38.0 2.70e-01 79.2% 82.6%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4208827 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.78 64.0 4.69e-01 94.8% 35.3%
3959918 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.78 67.0 4.65e-01 100.0% 30.9%
4356978 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.78 63.0 4.71e-01 94.8% 37.2%
4145212 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.77 65.0 5.12e-01 100.0% 45.8%
3969044 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.77 64.0 4.69e-01 93.5% 35.0%
4061607 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.76 64.0 4.82e-01 96.1% 38.4%
4073066 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.75 62.0 4.78e-01 98.7% 40.0%
3963903 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.74 63.0 4.79e-01 96.1% 40.0%
3989404 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.74 58.0 4.56e-01 98.7% 40.6%
4319349 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.74 62.0 4.75e-01 100.0% 40.6%
2132559 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.73 61.0 5.15e-01 98.7% 54.7%
4116376 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.71 58.0 4.58e-01 92.2% 43.1%
4162931 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.70 59.0 4.54e-01 94.8% 41.8%
4321654 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.68 57.0 4.39e-01 93.5% 40.6%
4140769 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.68 57.0 4.43e-01 93.5% 45.9%
3969369 102.1.1.0 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.66 57.0 4.49e-01 98.7% 45.3%
396872 107.1.1.9 ↗ alpha arrays › Cytochrome c-like › Cytochrome c › Cytochrome c › Cytochrome_CBB3 0.58 41.0 3.86e-01 74.0% 100.0%
3207746 149.1.1.0 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 0.55 45.0 2.56e-01 93.5% 37.0%
5080217 3281.1.1.0 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related 0.54 47.0 2.84e-01 100.0% 33.8%
3606822 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.52 41.0 3.81e-01 89.6% 95.0%
4011519 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.52 32.0 3.51e-01 71.4% 80.0%
5039847 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.51 32.0 3.66e-01 92.2% 90.9%
3169915 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.51 40.0 2.93e-01 89.6% 31.5%
D3 medium residues 210-344
PDB
Domain cluster: rep: LacPavin_0818_WC40_scaffold_120392_prodigal-single.1__X__X__00124__D100-235
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF07733.19 best DNA_pol3_alpha 46.7 4.60e-12 100.0% 48.9%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3nz4B03 1.10.274.20 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Phenylalanine ammonia-lyase 1; domain 3 0.52 38.0 4.19e-01 88.9% 98.1%
2wdoA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.50 28.0 2.96e-01 80.0% 56.9%
5xukA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.50 28.0 2.96e-01 79.3% 59.1%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1117589 316.1.1.17 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol3_alpha 0.87 77.0 5.65e-01 100.0% 39.7%
4064450 316.1.1.17 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol3_alpha 0.84 74.0 5.72e-01 100.0% 46.3%
4142452 316.1.1.17 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol3_alpha 0.83 63.0 5.01e-01 100.0% 42.0%
3969389 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.82 73.0 5.61e-01 100.0% 45.8%
4660116 316.1.1.17 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol3_alpha 0.80 71.0 5.45e-01 100.0% 45.0%
D4 medium residues 379-436_562-583
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17657.7 best DNA_pol3_finger 31.8 1.20e-07 83.8% 32.5%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3f2bA06 1.10.150.700 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › PolC, middle finger domain 0.85 80.0 7.18e-01 100.0% 85.7%
3s6jE02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.65 49.0 5.19e-01 82.5% 100.0%
1ddqD02 1.10.274.100 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › RNA polymerase Rpb1, domain 3 0.58 47.0 3.73e-01 93.8% 90.0%
1gcvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.57 47.0 3.97e-01 92.5% 78.6%
5ceeA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.55 40.0 2.88e-01 100.0% 26.3%
6bmeA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.54 42.0 3.69e-01 87.5% 75.6%
6n2nA01 3.40.920.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyruvate-ferredoxin Oxidoreductase; domain 3 › Pyruvate-ferredoxin oxidoreductase, PFOR, domain III 0.53 38.0 3.05e-01 77.5% 100.0%
2g80A02 1.10.720.60 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › 0.53 43.0 4.37e-01 96.2% 92.3%
2d2mD00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 44.0 3.74e-01 97.5% 83.4%
1xmcB03 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.52 43.0 3.43e-01 93.8% 95.5%
2lqgA00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.52 37.0 3.12e-01 75.0% 95.7%
1tzzB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 38.0 3.47e-01 81.2% 97.5%
4pt1B00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.52 40.0 3.54e-01 86.3% 86.7%
7ed6A01 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.51 42.0 3.29e-01 95.0% 100.0%
1sxjB03 1.20.272.10 Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › 0.51 34.0 3.36e-01 71.2% 70.7%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3969382 3584.1.1.0 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain 0.91 83.0 5.94e-01 97.5% 90.0%
4093848 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.91 85.0 6.02e-01 98.8% 90.0%
4158759 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.91 85.0 5.94e-01 100.0% 83.5%
4096085 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.89 84.0 5.97e-01 100.0% 88.1%
4522025 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.89 83.0 5.94e-01 100.0% 89.0%
4411663 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.88 82.0 5.70e-01 100.0% 90.2%
4257959 3584.1.1.1 ↗ alpha arrays › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA polymerase III finger domain › DNA_pol3_finger 0.88 82.0 6.03e-01 100.0% 93.7%
3955867 148.1.3.251 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › PF30647 0.65 45.0 4.73e-01 71.2% 100.0%
3253841 102.5.1.9 ↗ alpha arrays › HhH/H2TH › SAM-like subdomain in Sec63-like proteins › SAM-like subdomain in Sec63-like proteins › DUF7898 0.62 45.0 4.49e-01 78.8% 82.4%
4026520 4085.1.1.5 ↗ alpha arrays › RbcX-like › RbcX-like › RbcX-like › Stevor 0.57 43.0 4.40e-01 80.0% 97.3%
5075461 608.1.1.1 ↗ alpha arrays › AhpD-like › AhpD-like › AhpD-like › CMD 0.52 37.0 3.22e-01 73.8% 92.5%
5074457 1030.1.1.0 ↗ alpha duplicates or obligate multimers › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 › Crispr-associated protein Csm2 0.52 36.0 3.34e-01 72.5% 83.8%
4882932 3343.1.1.3 ↗ alpha complex topology › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › GCP_N_terminal 0.52 40.0 3.01e-01 82.5% 57.1%
D5 medium residues 437-561
PDB
Domain cluster: rep: OQ436456.1__WEU67336.1__X__00069__D1-102
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17657.7 best DNA_pol3_finger 35.4 9.70e-09 80.8% 50.0%