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YP_007348278.1

Arc-Vir

NC_020077__YP_007348278.1__STSV2-34__00034

Identity

Accession:
NC_020077 ↗
Protein ID:
YP_007348278.1 ↗
Kingdom:
archaea

Quality

72.4 mean pLDDT

Taxonomy

Bicaudaviridae› Sulfolobus_virus_STSV2

TaxID: 1123964

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 269-406
PDB
Domain cluster: rep: NC_020077__YP_007348278.1__STSV2-34__00034__D426-533
D2 high residues 606-728
PDB
D3 medium residues 5-167
PDB
D4 medium residues 426-533
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fewA00 1.20.58.70 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.80 64.0 5.41e-01 84.3% 59.0%
3rauA00 1.25.40.280 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › alix/aip1 like domains 0.79 57.0 3.89e-01 100.0% 22.6%
1t98A02 1.20.58.590 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chromosome partition protein MukF, middle domain 0.78 61.0 5.30e-01 83.3% 60.1%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.78 58.0 5.00e-01 76.9% 93.7%
3q15B00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.77 45.0 3.12e-01 73.1% 19.0%
6bl6B01 1.20.1560.10 Mainly Alpha › Up-down Bundle › ABC transporter transmembrane region fold › ABC transporter type 1, transmembrane domain 0.74 60.0 4.18e-01 84.3% 37.0%
4gyoA02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.73 45.0 3.46e-01 72.2% 30.0%
3rc3A05 1.20.58.1080 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 55.0 5.43e-01 100.0% 76.1%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 55.0 5.53e-01 83.3% 81.3%
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 62.0 5.87e-01 96.3% 84.4%
1z6oM00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.70 61.0 4.93e-01 91.7% 81.2%
5fzsA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.70 38.0 3.90e-01 73.1% 53.3%
3hiuD00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.69 59.0 5.25e-01 91.7% 94.1%
2chnB03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.69 48.0 4.04e-01 72.2% 57.2%
1jogA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.65 51.0 4.71e-01 81.5% 100.0%
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 0.64 56.0 5.80e-01 100.0% 100.0%
3ajmB02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.63 45.0 4.21e-01 74.1% 64.7%
1o5hA00 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.60 54.0 4.40e-01 100.0% 54.5%
8e9gK01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 44.0 4.69e-01 98.1% 93.4%
4mo7A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 45.0 4.16e-01 99.1% 93.7%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4004067 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.88 64.0 7.13e-01 74.1% 100.0%
4013663 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.84 49.0 4.29e-01 71.3% 41.3%
3935140 3755.4.1.0 ↗ alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.81 64.0 5.32e-01 82.4% 82.2%
5044068 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.81 48.0 5.09e-01 83.3% 67.4%
3265833 1075.4.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.79 64.0 4.40e-01 83.3% 36.8%
3478117 603.1.1.17 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › SNARE 0.79 72.0 5.95e-01 100.0% 81.1%
4024396 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.79 58.0 5.37e-01 76.9% 83.7%
3406218 604.7.1.0 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A 0.78 62.0 6.17e-01 83.3% 83.6%
3584048 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.78 60.0 6.56e-01 100.0% 96.7%
3392286 604.7.1.1 ↗ alpha bundles › Spectrin repeat-like › Tubulin chaperone cofactor A › Tubulin chaperone cofactor A › TBCA 0.77 61.0 6.14e-01 83.3% 82.7%
4015264 632.8.1.10 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › alpha-2-Macroglobulin receptor associated protein (RAP) domain 1 › CsbD 0.77 59.0 5.65e-01 81.5% 76.8%
4601110 1075.4.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.76 61.0 4.21e-01 83.3% 36.9%
5038249 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.76 64.0 6.05e-01 94.4% 76.8%
4508284 1075.4.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.76 61.0 4.20e-01 83.3% 36.9%
4590339 1075.4.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.75 61.0 4.20e-01 84.3% 36.9%
4306757 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.73 51.0 5.24e-01 72.2% 75.2%
3870558 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.72 54.0 5.27e-01 79.6% 95.8%
3537779 192.29.1.19 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › Cornichon 0.71 55.0 4.73e-01 80.6% 79.4%
4978274 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.69 54.0 5.37e-01 94.4% 79.1%
4958230 1075.4.1.1 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › Type I ABC exporter transmembrane domain fold › ABC_membrane 0.69 54.0 3.72e-01 82.4% 33.9%
3516162 603.1.1.23 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Sec20 0.69 62.0 5.32e-01 100.0% 74.1%
3596042 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.67 57.0 5.33e-01 92.6% 80.7%
3274161 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.67 59.0 5.48e-01 96.3% 80.0%
3703064 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.67 56.0 5.20e-01 92.6% 77.1%
3232981 192.29.1.30 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › DUF713 0.66 52.0 4.40e-01 82.4% 68.2%
4061425 4163.1.1.1 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like › Sld5 0.65 58.0 5.44e-01 96.3% 82.3%
3939532 6155.1.1.7 ↗ alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › CLPTM1 0.62 46.0 4.09e-01 94.4% 54.2%
2755018 3843.1.1.1 ↗ alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › Oxidored_q2 0.59 46.0 4.79e-01 98.1% 89.8%
3919817 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 51.0 3.46e-01 100.0% 69.5%
4361189 610.4.1.1 ↗ alpha arrays › ERP29 C domain-like › YqeY domain › YqeY domain › YqeY 0.54 48.0 4.03e-01 94.4% 72.9%
D5 medium residues 534-605
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ofzA01 1.20.58.1800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.78 67.0 5.72e-01 94.4% 90.3%
2oduA02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.76 62.0 5.52e-01 90.3% 88.6%
5jnmA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.72 55.0 4.13e-01 81.9% 46.0%
2cazE00 1.20.1440.200 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Vps28 N-terminal domain 0.69 56.0 5.06e-01 91.7% 89.1%
2p6vA00 1.20.120.1110 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › TAFH/NHR1 domain 0.68 52.0 4.77e-01 84.7% 93.8%
5uh5D02 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.67 48.0 3.93e-01 76.4% 68.1%
3wdsA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.67 56.0 3.82e-01 93.1% 56.0%
4eqyA02 1.20.1180.10 Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain 0.67 48.0 4.86e-01 91.7% 78.6%
2ra1A03 1.20.58.770 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 50.0 5.29e-01 87.5% 98.4%
4h15A00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.63 51.0 3.52e-01 90.3% 60.9%
6u3wB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.62 55.0 3.65e-01 98.6% 85.2%
2uyyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.60 52.0 4.36e-01 95.8% 100.0%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.59 42.0 4.14e-01 81.9% 70.5%
1pixA03 3.90.226.10 Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 0.57 47.0 3.16e-01 93.1% 33.1%
1wtyA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.56 45.0 3.81e-01 86.1% 81.0%
5af7A01 1.10.540.10 Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain 0.54 44.0 3.90e-01 93.1% 76.4%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3497897 3939.1.1.0 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.90 62.0 6.31e-01 70.8% 75.7%
3660125 3711.1.1.4 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein › DOG1 0.86 60.0 5.66e-01 72.2% 82.4%
4175971 604.3.1.43 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › FliX 0.84 70.0 6.49e-01 90.3% 82.2%
3782456 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 0.79 69.0 5.60e-01 94.4% 82.3%
3174383 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 0.77 67.0 5.22e-01 94.4% 70.7%
4028650 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.75 57.0 6.27e-01 87.5% 96.7%
3764996 11.2.1.77 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › FerA 0.74 60.0 5.05e-01 88.9% 80.0%
3626462 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.72 62.0 5.32e-01 95.8% 96.5%
2834664 540.1.1.2 ↗ few secondary structure elements › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › Cytochrome c oxidase subunit h › COX1 0.70 49.0 4.77e-01 80.6% 65.8%
3984062 603.1.1.217 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PqiA 0.70 60.0 5.37e-01 94.4% 97.0%
3590184 3711.1.1.0 ↗ alpha bundles › LTXXQ motif family protein › LTXXQ motif family protein › LTXXQ motif family protein 0.70 52.0 4.26e-01 80.6% 84.4%
3481299 1134.1.1.0 ↗ alpha bundles › C-terminal helical domain of alanine-tRNA ligase › C-terminal helical domain of alanine-tRNA ligase › Eukaryotic C-Ala helical domain 0.68 57.0 5.92e-01 90.3% 100.0%
3225048 3198.1.1.1 ↗ alpha bundles › ABA-1 repeat unit › ABA-1 repeat unit › ABA-1 repeat unit › NPA 0.62 45.0 3.83e-01 84.7% 45.6%
4995688 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 39.0 4.37e-01 77.8% 100.0%