Back to structures

IMGVR_UViG_2264265211_000001-2264265211-2264764754

Arc-Vir

IMGVR_UViG_2264265211_000001-2264265211-2264764754

Identity

Kingdom:
archaea

Quality

87.8 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 medium residues 39-79_136-224
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2a3vA02 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.88 72.0 5.95e-01 84.6% 96.7%
3nkhA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.87 73.0 5.94e-01 86.9% 95.0%
1aihA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.83 68.0 6.11e-01 85.4% 88.8%
1f44A01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.82 68.0 5.87e-01 86.9% 100.0%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.81 64.0 5.74e-01 82.3% 99.4%
4a8eA02 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.71 65.0 5.77e-01 96.9% 96.1%
1ae9A00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.67 64.0 5.76e-01 100.0% 100.0%
4fe7A03 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 49.0 5.24e-01 81.5% 100.0%
3uxuA00 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.62 58.0 5.36e-01 98.5% 99.4%
4dyqA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.57 40.0 4.45e-01 73.8% 94.2%
1p4wA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.56 36.0 4.13e-01 97.7% 94.3%
4gyvE00 1.20.900.10 Mainly Alpha › Up-down Bundle › Dbl Homology Domain; Chain A › Dbl homology (DH) domain 0.56 41.0 3.56e-01 78.5% 85.1%
1y8aA02 1.10.3870.10 Mainly Alpha › Orthogonal Bundle › AF1437-like domain fold › AF1437-like domain superfamily 0.55 32.0 3.34e-01 79.2% 59.5%
4dvyP01 1.10.357.130 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.55 41.0 3.61e-01 78.5% 98.0%
4f3vB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.54 39.0 3.11e-01 75.4% 46.3%
3fhgA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.51 38.0 4.01e-01 98.5% 89.4%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5016957 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.90 69.0 6.15e-01 79.2% 100.0%
4966027 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.90 75.0 6.56e-01 86.9% 95.1%
5059725 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.88 73.0 6.45e-01 86.9% 95.0%
4181053 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.87 73.0 6.12e-01 86.2% 93.0%
4475168 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.87 72.0 6.16e-01 86.2% 92.3%
5000880 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.86 71.0 6.25e-01 86.2% 93.9%
5083506 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.84 73.0 6.34e-01 90.0% 98.9%
4637388 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.84 71.0 6.38e-01 87.7% 95.3%
4981966 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.82 67.0 5.66e-01 84.6% 90.5%
3271483 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.80 63.0 5.46e-01 81.5% 99.5%
4965169 101.1.8.0 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.80 64.0 5.39e-01 83.8% 97.1%
4182686 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.79 67.0 5.76e-01 89.2% 99.0%
3964657 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.78 70.0 6.02e-01 94.6% 95.4%
4965845 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.76 59.0 5.16e-01 81.5% 94.2%
4954527 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.72 68.0 5.58e-01 100.0% 99.1%
4997941 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.71 67.0 5.60e-01 100.0% 96.2%
5008464 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.71 64.0 5.62e-01 96.2% 100.0%
5073434 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.70 66.0 5.63e-01 100.0% 98.0%
4992939 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.68 63.0 5.70e-01 97.7% 99.4%
3826955 101.1.1.65 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_4 0.59 39.0 3.84e-01 96.2% 61.4%
3829974 101.1.2.396 alpha arrays › HTH › HTH › winged helix domain › WHD_ROQ1 0.58 36.0 4.39e-01 92.3% 100.0%
3391523 4156.1.1.5 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › POLQ_helical 0.53 42.0 3.75e-01 83.8% 77.2%
3935816 4156.1.1.5 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › POLQ_helical 0.52 43.0 3.97e-01 86.2% 84.4%
3727024 4156.1.1.5 alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › POLQ_helical 0.50 42.0 3.89e-01 90.0% 100.0%
D2 medium residues 80-135
PDB
Domain cluster: representative
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.62 47.0 4.42e-01 83.9% 84.1%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.61 49.0 3.51e-01 89.3% 53.6%
4kmaA02 3.30.1360.230 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › Sufu, C-terminal domain 0.60 52.0 4.12e-01 100.0% 79.0%
3pieC05 2.170.260.40 Mainly Beta › Beta Complex › paz domain › 0.59 49.0 3.60e-01 96.4% 55.1%
7xc2A02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.58 47.0 3.90e-01 92.9% 84.9%
3twoA02 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 46.0 3.37e-01 87.5% 100.0%
4hn3A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.56 44.0 2.76e-01 89.3% 28.3%
2qx2A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.55 43.0 2.74e-01 89.3% 34.0%
3qfmA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.55 43.0 2.84e-01 87.5% 88.0%
3btxA00 2.60.120.590 Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like 0.55 40.0 2.81e-01 82.1% 34.8%
5bpdA02 3.30.870.10 Alpha Beta › 2-Layer Sandwich › Endonuclease; Chain A › Endonuclease Chain A 0.55 43.0 3.36e-01 94.6% 76.9%
5iroD00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 37.0 3.08e-01 71.4% 59.8%
2i9dA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.53 40.0 2.68e-01 80.4% 88.3%
2y23A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 41.0 3.45e-01 89.3% 91.3%
2mh9A00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.53 47.0 3.60e-01 100.0% 86.6%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 39.0 3.39e-01 80.4% 76.5%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 42.0 3.36e-01 100.0% 43.0%
7t8tA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 42.0 3.20e-01 89.3% 53.4%
3ibjA02 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.52 41.0 3.03e-01 94.6% 63.1%
3ogzA01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.51 38.0 2.30e-01 83.9% 41.9%
6pl6B01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 40.0 2.62e-01 100.0% 81.9%
1bvoA00 2.60.40.340 Mainly Beta › Sandwich › Immunoglobulin-like › Rel homology domain (RHD), DNA-binding domain 0.50 39.0 2.88e-01 91.1% 53.1%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4428937 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.90 76.0 5.74e-01 100.0% 41.7%
4031248 101.1.8.0 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.81 66.0 5.24e-01 87.5% 58.1%
3589779 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.79 73.0 5.20e-01 100.0% 50.0%
3926774 101.1.8.0 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.67 58.0 4.38e-01 100.0% 48.6%
3787619 206.1.3.21 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.66 57.0 4.57e-01 100.0% 63.5%
4012816 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.65 55.0 4.31e-01 98.2% 88.5%
4026099 208.1.1.0 beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes 0.64 49.0 3.66e-01 85.7% 66.0%
4022846 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.61 51.0 3.46e-01 94.6% 52.1%
2529893 284.2.1.0 a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.61 47.0 4.42e-01 85.7% 84.3%
4451687 207.1.1.95 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_14 0.61 36.0 2.12e-01 100.0% 7.5%
4344731 221.2.1.2 a+b two layers › beta-Grasp › IF3-N › IF3-N › mIF3 0.60 46.0 4.07e-01 87.5% 94.4%
3180942 2.1.1.194 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Mit_ribos_Mrp51 0.60 45.0 3.38e-01 83.9% 95.3%
4474209 10.12.1.0 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.60 45.0 3.01e-01 82.1% 73.2%
4054285 5.1.4.139 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_2 0.59 44.0 2.59e-01 82.1% 21.8%
3827266 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.59 48.0 3.69e-01 94.6% 81.4%
3588071 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 45.0 3.37e-01 87.5% 36.9%
4928589 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.59 46.0 3.41e-01 89.3% 76.9%
3202870 220.1.1.36 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_12 0.58 47.0 3.83e-01 96.4% 60.8%
5035423 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.57 45.0 3.99e-01 91.1% 95.3%
4374826 4263.2.1.1 a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain › FtsH_ext 0.56 47.0 4.15e-01 98.2% 63.7%
3625473 70.3.1.0 beta barrels › beta-clip › SET domain-like › SET domain-like 0.56 41.0 2.63e-01 91.1% 14.5%
3387155 298.1.1.24 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C3 0.56 44.0 3.13e-01 91.1% 89.2%
4969691 304.139.1.2 a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.56 43.0 2.86e-01 83.9% 98.4%
3935357 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 46.0 3.68e-01 100.0% 45.8%
3588192 4325.1.1.7 mixed a+b and a/b › YegP-like › YegP-like › YegP-like › Arm-DNA-bind_4 0.54 35.0 3.68e-01 73.2% 76.0%
4951776 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 41.0 3.59e-01 87.5% 90.5%
4381755 2003.1.1.3 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › adh_short 0.54 44.0 2.75e-01 91.1% 80.0%
3723841 2003.1.2.58 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox, Pyr_redox_2 0.54 41.0 2.48e-01 87.5% 56.1%
3244569 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.54 37.0 3.31e-01 73.2% 51.8%
3576850 3937.1.1.2 alpha bundles › Connexin 26 › Connexin 26 › Connexin 26 › Innexin 0.54 42.0 2.69e-01 91.1% 19.7%
3937837 376.1.3.1 few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › PHD 0.54 42.0 3.28e-01 92.9% 85.5%
3993351 70.3.1.0 beta barrels › beta-clip › SET domain-like › SET domain-like 0.53 38.0 2.45e-01 87.5% 13.4%
3898657 318.1.1.0 a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 0.53 32.0 2.97e-01 78.6% 41.3%
144952 304.5.1.10 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › CBD_PlyG 0.52 39.0 3.39e-01 80.4% 76.5%
3710833 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 38.0 2.73e-01 80.4% 30.8%
5016748 101.1.2.30 alpha arrays › HTH › HTH › winged helix domain › TrmB 0.52 35.0 2.90e-01 87.5% 34.2%
3924618 2.6.1.0 beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease 0.52 39.0 2.89e-01 87.5% 32.0%
3734323 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 41.0 2.50e-01 87.5% 20.0%
4965158 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.51 34.0 3.11e-01 75.0% 52.0%
5070036 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 42.0 3.20e-01 98.2% 83.3%
5059914 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.50 44.0 3.68e-01 100.0% 68.0%
3406265 145.1.1.1 alpha arrays › F-box domain › F-box domain › F-box domain › F-box 0.50 36.0 3.29e-01 82.1% 70.6%