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OR473000.1__WNL50931.1__SCREM2_gp12__00012

Bact-Vir

OR473000.1__WNL50931.1__SCREM2_gp12__00012

Identity

Accession:
OR473000 ↗
Kingdom:
phage

Quality

69.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Synechococcus_phage_S-CREM2

TaxID: 3075959

Cluster

View cluster (2 members)

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 medium residues 33-87
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2od0A00 3.30.1460.30 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › YgaC/TfoX-N like chaperone 0.66 54.0 4.39e-01 90.9% 72.8%
6jkuA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.64 47.0 3.98e-01 81.8% 96.9%
1f49A05 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.61 41.0 2.62e-01 70.9% 49.7%
2ogjA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.61 48.0 3.87e-01 90.9% 97.4%
2gwcA00 3.30.590.20 Alpha Beta › 2-Layer Sandwich › Creatine Kinase; Chain A, domain 2 › 0.60 49.0 2.99e-01 100.0% 32.2%
2y8nB01 2.20.70.100 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.57 35.0 3.86e-01 89.1% 78.6%
5n70A02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.57 48.0 3.53e-01 100.0% 73.3%
1nykA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.56 43.0 3.24e-01 89.1% 35.9%
1xe7A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 41.0 2.97e-01 81.8% 71.0%
8ajqA01 3.90.1590.10 Alpha Beta › Alpha-Beta Complex › glutathione-dependent formaldehyde- activating enzyme (gfa) › glutathione-dependent formaldehyde- activating enzyme (gfa) 0.56 46.0 3.70e-01 94.5% 60.0%
1uh9A02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.56 48.0 3.58e-01 100.0% 70.5%
3a07B00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.53 42.0 3.48e-01 98.2% 70.3%
3ohsX02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 37.0 2.66e-01 83.6% 65.2%
7pluA01 1.20.58.530 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 38.0 3.16e-01 85.5% 51.3%
2dk6A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.51 36.0 3.13e-01 78.2% 52.1%
3o44A03 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.50 42.0 3.38e-01 100.0% 71.4%
1lwjA02 3.90.400.10 Alpha Beta › Alpha-Beta Complex › Oligo-1,6-glucosidase; domain 2 › Oligo-1,6-glucosidase; Domain 2 0.50 34.0 3.34e-01 100.0% 63.1%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4969302 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.68 48.0 4.40e-01 72.7% 82.9%
3271184 314.1.1.6 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › BPL_LplA_LipB 0.66 55.0 3.69e-01 96.4% 47.7%
4572115 4294.1.1.2 ↗ few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › Trm112p 0.65 45.0 4.52e-01 72.7% 85.5%
4934918 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.62 48.0 4.47e-01 85.5% 74.3%
4335812 708.1.2.10 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › HECT_2 0.59 49.0 4.05e-01 100.0% 64.5%
5044354 375.1.1.12 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27e 0.58 44.0 3.99e-01 83.6% 66.7%
146829 374.1.1.5 ↗ few secondary structure elements › HIPIP (high potential iron protein) › HIPIP (high potential iron protein) › HIPIP (high potential iron protein) › 4HPAD_g_N 0.57 35.0 3.88e-01 89.1% 80.5%
3600162 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 42.0 3.77e-01 81.8% 71.2%
1421567 375.1.1.12 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27e 0.57 42.0 4.24e-01 81.8% 87.5%
3831652 71.1.1.17 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › PF28435 0.56 48.0 3.47e-01 96.4% 77.2%
2967099 708.1.2.6 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › GFA 0.56 46.0 3.55e-01 94.5% 52.3%
4978884 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.55 43.0 3.91e-01 85.5% 80.0%
4996528 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.53 42.0 4.40e-01 92.7% 96.0%
5050463 4294.1.1.0 ↗ few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like 0.53 41.0 4.10e-01 90.9% 86.7%
3251743 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.53 37.0 3.37e-01 78.2% 69.0%
4961043 11.1.4.23 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.53 37.0 3.28e-01 78.2% 96.7%
3689620 708.1.2.6 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › GFA 0.52 44.0 3.21e-01 100.0% 59.4%
3254631 4357.1.1.1 ↗ beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.51 37.0 3.57e-01 80.0% 80.0%
5071572 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 37.0 3.57e-01 80.0% 76.9%
D2 medium residues 232-285
PDB
D3 medium residues 351-371_490-561
PDB
Domain cluster: representative
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3941194 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.51 36.0 3.61e-01 72.0% 89.5%
5057564 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.51 39.0 3.29e-01 100.0% 47.5%
4935806 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 38.0 3.73e-01 100.0% 74.0%
D4 medium residues 372-489
PDB
Domain cluster: rep: NC_047713.1__YP_009778627.1__HOQ62_gp187__00187__D456-551
D5 medium residues 637-683_750-807
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.73 42.0 4.92e-01 80.0% 81.1%
4v1gA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.67 39.0 4.29e-01 80.0% 71.8%
2mpnA00 6.10.140.1340 Special › Helix non-globular › Helix Hairpins › 0.66 37.0 4.44e-01 80.0% 83.8%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.66 38.0 4.46e-01 80.0% 81.1%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.66 38.0 4.75e-01 80.0% 95.2%
4ioeA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.65 40.0 4.33e-01 81.9% 73.6%
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.62 38.0 4.56e-01 80.0% 95.6%
3fd9A03 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.62 38.0 4.45e-01 84.8% 89.0%
2uubT00 1.20.58.110 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Ribosomal protein S20 0.61 40.0 4.12e-01 94.3% 69.7%
3bvxA02 1.20.1270.50 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Glycoside hydrolase family 38, central domain 0.59 42.0 4.14e-01 91.4% 69.4%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 37.0 4.21e-01 81.9% 84.0%
4e4eA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.58 35.0 4.08e-01 81.0% 88.7%
1yuzB01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 48.0 4.46e-01 94.3% 94.2%
4a25B01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.57 49.0 4.27e-01 94.3% 83.9%
2i2xB01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.57 40.0 4.14e-01 91.4% 78.0%
1f6fA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.56 43.0 3.58e-01 98.1% 46.4%
1tjoB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.56 47.0 4.02e-01 94.3% 93.1%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.55 40.0 4.06e-01 85.7% 76.0%
2c2jA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.55 47.0 4.08e-01 96.2% 90.3%
4nwpD00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.54 47.0 4.20e-01 95.2% 91.9%
1rcwB00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.53 46.0 3.72e-01 98.1% 72.4%
3tulB00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 43.0 3.96e-01 85.7% 82.0%
1hs7A00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 40.0 4.13e-01 94.3% 85.6%
2clbA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 41.0 3.67e-01 85.7% 81.8%
3lssA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.51 42.0 4.17e-01 88.6% 91.1%
2i0mA02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.51 41.0 4.15e-01 94.3% 91.1%
1sumB02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.50 44.0 4.30e-01 97.1% 89.0%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.50 39.0 3.96e-01 82.9% 98.1%
1d2tA00 1.20.144.10 Mainly Alpha › Up-down Bundle › Vanadium-containing Chloroperoxidase; domain 1 › Phosphatidic acid phosphatase type 2/haloperoxidase 0.50 43.0 3.48e-01 99.0% 72.5%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4109908 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.69 40.0 4.44e-01 79.0% 70.6%
3333417 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.68 38.0 4.07e-01 80.0% 63.3%
3787792 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.68 38.0 4.07e-01 80.0% 63.3%
3605393 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.67 37.0 4.10e-01 80.0% 67.1%
4933898 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.66 37.0 4.19e-01 80.0% 73.1%
3596143 5041.1.1.0 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C 0.65 37.0 4.32e-01 80.0% 81.4%
4957093 3456.1.1.1 ↗ extended segments › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › NADH-quinone oxidoreductase subunit A › Oxidored_q4 0.63 39.0 3.72e-01 82.9% 53.8%
3796824 109.7.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Cytochrome c oxidase subunit E › Cytochrome c oxidase subunit E 0.61 35.0 4.06e-01 90.5% 81.4%
2799599 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.59 38.0 4.20e-01 80.0% 80.2%
3246273 310.2.1.1 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.59 51.0 4.09e-01 92.4% 88.7%
3627202 375.10.1.1 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha › zf-DNA_Pol 0.58 37.0 3.69e-01 70.5% 60.9%
3389546 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.58 39.0 4.44e-01 91.4% 91.3%
3253427 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.55 35.0 3.80e-01 82.9% 76.1%
3861565 150.3.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › Hormone_1 0.54 47.0 3.80e-01 99.0% 49.0%
4944522 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.54 45.0 3.49e-01 92.4% 43.7%
5010354 5041.1.1.1 ↗ extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › ATP-synt_C 0.53 38.0 4.33e-01 80.0% 100.0%
3188384 601.14.1.1 ↗ alpha bundles › Four-helical up-and-down bundle › Hemerythrin › Hemerythrin › Hemerythrin 0.51 44.0 3.71e-01 95.2% 64.6%