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WAE39524.1

Arc-Vir

OP880252__WAE39524.1__LDLAKGPJ-00100__00100

Identity

Accession:
OP880252 ↗
Protein ID:
WAE39524.1 ↗
Kingdom:
archaea

Quality

66.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nakonvirales› Ekchuahviridae› Kukulkanvirus› Methanophagales_virus_GBV301

TaxID: 2999280

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 12-53
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6dgiA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.73 60.0 4.22e-01 97.6% 35.4%
2y3aA01 3.10.20.770 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.71 51.0 3.15e-01 81.0% 51.4%
1kqfA02 3.40.50.740 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.68 47.0 2.96e-01 100.0% 13.0%
2kinA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.67 50.0 3.14e-01 83.3% 80.7%
1kf6A04 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.66 39.0 4.19e-01 71.4% 68.6%
3vpbB03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.65 51.0 3.84e-01 90.5% 36.6%
4jdmA02 6.10.250.2680 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.65 44.0 3.83e-01 71.4% 57.1%
3kk7A01 3.30.420.400 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.64 47.0 3.51e-01 100.0% 31.2%
2kgfA00 1.10.375.10 Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein 0.62 51.0 3.65e-01 100.0% 97.1%
6sy1A02 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.62 54.0 3.17e-01 100.0% 13.6%
1q45A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.59 51.0 2.97e-01 100.0% 18.1%
3f4lA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.58 48.0 3.09e-01 100.0% 94.6%
2kyyA00 3.30.950.30 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Schlafen, AAA domain 0.57 48.0 3.41e-01 100.0% 68.6%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 52.0 3.88e-01 100.0% 44.3%
3tm4A01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.56 45.0 3.04e-01 97.6% 78.3%
5wb2B00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 44.0 3.70e-01 88.1% 95.9%
2pw4A00 1.10.3300.10 Mainly Alpha › Orthogonal Bundle › Jann2411-like fold › Jann2411-like domain 0.55 47.0 3.01e-01 100.0% 21.3%
3gr0D01 3.30.70.1780 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 38.0 3.91e-01 88.1% 75.6%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 49.0 3.17e-01 100.0% 27.3%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 47.0 2.85e-01 100.0% 24.7%
6ketA01 3.20.20.30 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Luciferase-like domain 0.54 49.0 2.84e-01 97.6% 31.9%
6lw5A01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 48.0 2.87e-01 100.0% 13.9%
3go5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 36.0 3.08e-01 71.4% 36.7%
3icyA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.54 42.0 3.16e-01 92.9% 63.6%
1f02T00 4.10.820.10 Few Secondary Structures › Irregular › Translocated Intimin Receptor; Chain T › Translocated intimin receptor, central domain 0.54 48.0 4.14e-01 100.0% 71.2%
2mp1A00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 45.0 3.77e-01 97.6% 85.7%
2bw2A01 3.10.20.420 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Bypass-of-forespore C, N-terminal domain 0.54 38.0 3.56e-01 78.6% 76.4%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.53 46.0 3.70e-01 100.0% 52.0%
2py5A05 4.10.80.20 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › DNA polymerase; domain 5 0.52 33.0 3.56e-01 81.0% 83.3%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.52 46.0 2.96e-01 95.2% 91.5%
4z32C02 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.51 34.0 2.58e-01 85.7% 24.2%
4n0rA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.51 43.0 2.50e-01 90.5% 24.2%
ECOD (44)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3619978 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.72 52.0 3.04e-01 100.0% 9.6%
3272887 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.70 49.0 3.35e-01 100.0% 23.0%
3410006 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.70 60.0 3.57e-01 100.0% 91.1%
4098243 7512.1.1.6 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_20 0.69 54.0 3.28e-01 100.0% 13.7%
3242234 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.69 48.0 2.68e-01 100.0% 6.0%
4936600 304.51.1.1 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › Cas_Cas6_C 0.69 55.0 3.95e-01 100.0% 30.8%
3303184 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.66 51.0 2.96e-01 85.7% 60.2%
3281747 213.5.1.1 ↗ a+b three layers › Nat/Ivy › AlkZ C-terminal domain › AlkZ C-terminal domain › AlkZ-like 0.65 58.0 4.22e-01 97.6% 63.8%
4043003 601.7.1.6 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase 0.64 52.0 3.47e-01 90.5% 58.8%
3853833 304.9.1.81 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RBD_AKAP-17A 0.64 56.0 3.72e-01 97.6% 81.2%
3753477 304.9.1.81 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RBD_AKAP-17A 0.64 57.0 3.44e-01 97.6% 52.5%
3994831 5076.1.1.1 ↗ alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.64 56.0 3.36e-01 100.0% 91.6%
3326491 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.64 55.0 3.49e-01 95.2% 41.0%
4983222 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.63 51.0 3.05e-01 92.9% 96.1%
4928248 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 58.0 3.96e-01 100.0% 56.9%
3311607 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.63 46.0 3.42e-01 100.0% 30.9%
3303720 3336.1.1.1 ↗ alpha complex topology › plant-specific ROP nucleotide exchanger (PRONE) domain › plant-specific ROP nucleotide exchanger (PRONE) domain › plant-specific ROP nucleotide exchanger (PRONE) domain › PRONE 0.62 56.0 3.24e-01 100.0% 15.9%
3266302 543.1.1.0 ↗ few secondary structure elements › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related › Frizzled cysteine-rich domain-related 0.61 45.0 3.07e-01 81.0% 53.1%
2755218 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.61 50.0 3.14e-01 100.0% 18.4%
3705380 857.1.1.19 ↗ a+b duplicates or obligate multimers › Cell division protein ZapA-like › Cell division protein ZapA-like › Cell division protein ZapA-like › Ax_dynein_light 0.60 54.0 3.90e-01 100.0% 83.5%
3444901 4954.1.1.0 ↗ a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit 0.60 54.0 3.52e-01 100.0% 30.3%
4965204 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.60 55.0 3.85e-01 100.0% 47.5%
3517620 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.59 54.0 3.16e-01 100.0% 57.8%
3603146 2008.1.1.95 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DpnII 0.59 50.0 3.04e-01 95.2% 77.9%
3620852 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.59 49.0 4.44e-01 90.5% 85.5%
3912274 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.58 51.0 4.33e-01 100.0% 67.1%
1117773 1.1.13.24 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DTP-pb9_A-dom_C,DTP-pb9_A-dom_N 0.58 51.0 4.30e-01 97.6% 67.2%
3782687 2003.1.5.63 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › CARME 0.58 48.0 2.81e-01 100.0% 26.2%
4191800 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.57 47.0 4.31e-01 90.5% 85.5%
3981752 829.1.1.1 ↗ a+b duplicates or obligate multimers › NinB › NinB › NinB › NinB 0.57 53.0 3.66e-01 100.0% 40.8%
3611700 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.57 52.0 3.07e-01 100.0% 32.3%
3743565 109.4.1.313 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › UTP20_N 0.57 51.0 2.99e-01 100.0% 14.1%
3600035 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 37.0 3.29e-01 76.2% 43.1%
3520913 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.56 51.0 2.83e-01 100.0% 13.0%
3176450 1.1.5.18 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › FMN_bind_2 0.56 47.0 3.50e-01 95.2% 60.6%
3704338 2004.1.1.26 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.55 49.0 3.12e-01 97.6% 65.3%
5004463 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 44.0 2.73e-01 100.0% 49.7%
3641356 221.1.1.44 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Rad60-SLD 0.55 39.0 3.31e-01 78.6% 62.7%
4025375 2008.1.1.86 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAP 0.54 37.0 2.82e-01 71.4% 48.7%
4325826 225.1.1.27 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › PF26329 0.54 48.0 2.91e-01 100.0% 20.1%
3454374 207.1.1.96 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_At1g61320_AtMIF1 0.53 40.0 2.44e-01 97.6% 10.8%
4928783 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.52 44.0 3.82e-01 92.9% 63.5%
6693 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.51 46.0 3.01e-01 100.0% 79.0%
4944096 304.51.1.1 ↗ a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › Cas_Cas6_C 0.51 43.0 3.03e-01 92.9% 32.3%