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NC_003714.1__NP_620341.1__phi-6S_2__00002

Bact-Vir

NC_003714.1__NP_620341.1__phi-6S_2__00002

Identity

Accession:
NC_003714 ↗
Kingdom:
phage

Quality

55.7 mean pLDDT

Taxonomy

Orthornavirae› Duplornaviricota› Vidaverviricetes› Mindivirales› Cystoviridae› Orthocystovirus› Pseudomonas_phage_phi6

TaxID: 2928686

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 6-137
PDB
D2 medium residues 154-193
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3p2aA01 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.77 59.0 6.20e-01 90.0% 94.4%
3vpbE00 2.20.28.160 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.74 63.0 5.76e-01 100.0% 73.2%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.70 58.0 5.27e-01 97.5% 85.7%
1xjhA00 3.90.1280.10 Alpha Beta › Alpha-Beta Complex › CBS domain Like › HSP33 redox switch-like 0.69 50.0 4.56e-01 85.0% 75.8%
4m4zA01 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.65 55.0 5.29e-01 100.0% 93.6%
2ckkA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.65 56.0 5.14e-01 100.0% 84.9%
2nutA02 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.65 55.0 4.87e-01 100.0% 70.5%
5i4eA01 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.64 54.0 5.20e-01 100.0% 87.0%
4iupA02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.64 54.0 4.55e-01 100.0% 72.2%
1b7tA02 2.30.30.360 Mainly Beta › Roll › SH3 type barrels. › Myosin S1 fragment, N-terminal 0.63 53.0 4.93e-01 100.0% 76.9%
1y89A00 3.40.50.1360 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.62 52.0 3.27e-01 100.0% 16.5%
7cfdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.61 50.0 4.27e-01 100.0% 54.8%
2eczA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.60 48.0 4.19e-01 100.0% 72.9%
2wcyA01 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.60 43.0 3.49e-01 100.0% 41.3%
7u32F02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.59 47.0 4.53e-01 100.0% 88.2%
1irxA02 2.30.30.300 Mainly Beta › Roll › SH3 type barrels. › class i lysyl-tRNA synthetase like 0.59 45.0 4.55e-01 100.0% 93.0%
1ggpA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.59 40.0 2.77e-01 72.5% 34.9%
2xocA01 3.30.40.140 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.58 42.0 3.39e-01 77.5% 57.7%
1k1zA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 46.0 3.92e-01 100.0% 74.4%
2kxcA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 46.0 4.09e-01 100.0% 79.1%
8hnzA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.58 48.0 2.77e-01 95.0% 77.8%
2ewlA00 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 41.0 3.80e-01 80.0% 76.8%
2diqA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.57 48.0 3.72e-01 100.0% 50.0%
4xcmA02 3.90.1720.10 Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › endopeptidase domain like (from Nostoc punctiforme) 0.57 40.0 2.90e-01 70.0% 28.5%
2yrvA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.56 47.0 3.49e-01 100.0% 44.2%
1yn8A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 45.0 4.13e-01 100.0% 86.4%
1zuuA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.56 42.0 4.04e-01 100.0% 92.9%
2epbA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 39.0 3.49e-01 82.5% 67.6%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.55 42.0 2.69e-01 92.5% 92.1%
4tvcA01 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.54 39.0 2.64e-01 85.0% 44.1%
1vq0A02 3.90.1280.10 Alpha Beta › Alpha-Beta Complex › CBS domain Like › HSP33 redox switch-like 0.54 40.0 3.76e-01 92.5% 75.4%
6vlfA03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.52 37.0 3.62e-01 100.0% 89.7%
4l8nA03 3.30.160.670 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 37.0 2.65e-01 90.0% 91.5%
7qzqA01 2.120.10.80 Mainly Beta › 6 Propeller › Neuraminidase › Kelch-type beta propeller 0.51 39.0 2.44e-01 100.0% 24.9%
3abgB01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.51 34.0 2.40e-01 70.0% 40.1%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 37.0 3.38e-01 87.5% 57.9%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5038137 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.89 78.0 7.85e-01 97.5% 95.0%
3387951 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.89 77.0 7.80e-01 95.0% 95.0%
5000687 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.89 77.0 6.83e-01 97.5% 75.9%
4980259 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.89 79.0 7.57e-01 97.5% 86.7%
4968628 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.87 75.0 7.53e-01 95.0% 97.5%
5058894 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.87 76.0 7.38e-01 97.5% 91.1%
4969277 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.85 73.0 7.32e-01 100.0% 95.0%
5080678 4.26.1.0 ↗ beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 0.85 73.0 6.61e-01 97.5% 74.5%
5038157 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.84 74.0 7.19e-01 100.0% 88.9%
3702075 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.83 67.0 6.23e-01 90.0% 72.0%
3599938 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.83 67.0 6.25e-01 90.0% 72.0%
3667994 375.1.1.69 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zinc_ribbon_12 0.83 63.0 6.69e-01 82.5% 100.0%
3457887 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.79 69.0 6.66e-01 100.0% 95.6%
4465307 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.78 62.0 5.82e-01 97.5% 72.0%
3454406 375.1.1.69 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zinc_ribbon_12 0.77 63.0 6.00e-01 100.0% 92.0%
5040906 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.76 61.0 6.17e-01 95.0% 100.0%
4932366 375.1.2.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Desulforedoxin 0.76 59.0 5.91e-01 95.0% 90.0%
3538506 375.1.1.217 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF26040 0.75 65.0 6.07e-01 97.5% 78.0%
4951670 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 60.0 5.24e-01 97.5% 60.0%
5083127 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 53.0 5.53e-01 92.5% 100.0%
4011699 4224.1.1.0 ↗ few secondary structure elements › CHY zinc finger › CHY zinc finger › CHY zinc finger 0.71 55.0 4.78e-01 87.5% 56.7%
4951495 375.1.1.299 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › CPxCG_zf 0.69 60.0 6.10e-01 97.5% 97.5%
3688315 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 57.0 5.39e-01 100.0% 80.0%
5017134 208.1.1.1 ↗ beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Hexapep 0.67 55.0 3.61e-01 100.0% 20.5%
4269256 4.1.1.245 ↗ beta barrels › SH3 › SH3 › SH3 › SspH 0.67 54.0 4.73e-01 100.0% 60.0%
5032251 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.66 54.0 5.31e-01 95.0% 86.7%
3708692 375.1.1.30 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-Sec23_Sec24 0.66 58.0 3.79e-01 100.0% 25.1%
3260588 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.66 47.0 4.45e-01 80.0% 76.0%
3318055 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 51.0 5.19e-01 100.0% 92.5%
3613278 375.8.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta 0.65 57.0 5.51e-01 95.0% 84.4%
5014374 2005.1.1.17 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1f 0.65 53.0 3.00e-01 100.0% 8.3%
4203984 101.8.1.1 ↗ alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › tRNA-synt_1f,Anticodon_2 0.65 53.0 3.00e-01 100.0% 8.3%
3362626 375.1.1.30 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-Sec23_Sec24 0.64 55.0 4.51e-01 97.5% 57.3%
3601077 375.1.1.30 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-Sec23_Sec24 0.64 55.0 4.60e-01 100.0% 61.4%
4556132 375.1.1.74 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Mu-like_Com 0.62 46.0 4.87e-01 87.5% 94.3%
None — 0.62 51.0 3.12e-01 97.5% 12.8%
4816818 4.1.1.33 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.62 50.0 4.87e-01 97.5% 85.1%
4963768 375.1.1.354 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PF28086 0.62 46.0 4.79e-01 90.0% 100.0%
4890270 4.1.1.33 ↗ beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.61 51.0 4.74e-01 100.0% 74.1%
3849311 4.1.1.1 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_1 0.61 52.0 4.60e-01 100.0% 85.0%
3408588 4.1.1.243 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_Myosin-XVIIIa 0.60 52.0 4.37e-01 100.0% 64.3%
3894798 4.1.1.243 ↗ beta barrels › SH3 › SH3 › SH3 › SH3_Myosin-XVIIIa 0.59 52.0 5.00e-01 100.0% 97.8%
3247046 377.1.1.83 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › PF26040 0.59 44.0 4.43e-01 95.0% 97.5%
3620094 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 50.0 4.57e-01 100.0% 74.5%
3475965 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 50.0 4.86e-01 100.0% 88.9%
4951973 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 47.0 4.34e-01 90.0% 65.5%
3189994 375.1.1.19 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.55 44.0 3.54e-01 97.5% 43.3%
3935170 375.1.1.19 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.52 38.0 3.82e-01 100.0% 84.4%
4963287 375.1.1.334 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › HVO_0758 0.52 40.0 3.75e-01 92.5% 67.3%
3500033 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 39.0 3.82e-01 97.5% 82.0%
3204805 73.1.1.1 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain › FHA 0.51 38.0 3.23e-01 97.5% 100.0%
3395104 2008.2.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like 0.51 35.0 2.57e-01 77.5% 44.3%
4000403 4.1.1.28 ↗ beta barrels › SH3 › SH3 › SH3 › BPL_C 0.50 43.0 4.04e-01 100.0% 90.0%