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YP_009666090.1

Arc-Vir

NC_043427__YP_009666090.1__FK997-gp45__00045

Identity

Accession:
NC_043427 ↗
Protein ID:
YP_009666090.1 ↗
Kingdom:
archaea

Quality

90.5 mean pLDDT

Taxonomy

Spiraviridae› Alphaspiravirus› Alphaspiravirus_yamagawaense

TaxID: 1157339

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 3-88
PDB
Domain cluster: rep: OP172807.1__WAX16195.1__EH802P2_00090__00089__D4-73
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6iomB01 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.78 45.0 4.80e-01 97.7% 64.9%
1z2lA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.74 51.0 3.47e-01 72.1% 35.5%
4pxcA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.72 51.0 3.43e-01 73.3% 34.3%
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.72 48.0 4.69e-01 83.7% 62.8%
3khxA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.72 49.0 3.58e-01 70.9% 55.0%
2xskA00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.68 44.0 4.30e-01 100.0% 60.0%
1r0uA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.67 60.0 5.11e-01 100.0% 91.5%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.66 48.0 4.55e-01 82.6% 63.7%
2n59A00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.65 42.0 4.05e-01 100.0% 56.4%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.64 45.0 4.21e-01 100.0% 58.7%
2greA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.63 44.0 3.16e-01 70.9% 46.2%
1m0wA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.63 36.0 3.37e-01 100.0% 43.5%
2pcsA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.62 47.0 3.96e-01 81.4% 64.5%
2qyvA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.62 45.0 3.16e-01 75.6% 46.9%
2wyrA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.61 43.0 3.08e-01 72.1% 43.8%
3d0jA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 33.0 2.86e-01 100.0% 32.6%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.61 47.0 3.98e-01 86.0% 69.9%
4r7kA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.61 50.0 4.11e-01 93.0% 70.8%
1n26A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 39.0 3.68e-01 100.0% 53.3%
1yloA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.60 43.0 3.04e-01 74.4% 82.6%
2leqA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.60 46.0 3.96e-01 84.9% 71.2%
2v5yA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 37.0 3.55e-01 100.0% 52.9%
1hjrA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.59 46.0 3.78e-01 84.9% 89.9%
4xrtA01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.58 44.0 3.76e-01 81.4% 69.0%
4p4mA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.58 48.0 4.38e-01 91.9% 79.1%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.57 33.0 3.58e-01 89.5% 69.0%
4fpwB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 48.0 4.01e-01 97.7% 60.9%
3mfiA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 42.0 3.82e-01 100.0% 58.0%
6gfaA02 3.30.30.30 Alpha Beta › 2-Layer Sandwich › Defensin A-like › 0.56 32.0 3.73e-01 88.4% 83.9%
1njhA00 2.70.180.10 Mainly Beta › Distorted Sandwich › Protein Yojf; Chain: A; › Hypothetical protein YojF 0.56 48.0 4.53e-01 97.7% 78.7%
3fo5B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 48.0 3.57e-01 97.7% 56.7%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.56 39.0 3.37e-01 75.6% 78.2%
3jvvA01 3.30.450.90 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 41.0 3.90e-01 77.9% 79.0%
1xfsA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.55 46.0 3.84e-01 93.0% 69.5%
1uu1B01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 47.0 4.05e-01 91.9% 74.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 36.0 3.82e-01 98.8% 76.3%
4z48A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.55 49.0 3.58e-01 100.0% 85.8%
1aolA00 3.90.310.10 Alpha Beta › Alpha-Beta Complex › Viral Glycoprotein Gp70 › ENV polyprotein, receptor-binding domain 0.55 47.0 3.57e-01 100.0% 95.6%
3holA04 2.40.160.90 Mainly Beta › Beta Barrel › Porin › 0.54 47.0 4.03e-01 98.8% 91.7%
3p0lD00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 45.0 3.62e-01 95.3% 64.3%
3lydA01 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.54 47.0 4.02e-01 97.7% 100.0%
3pu2B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 47.0 3.89e-01 96.5% 69.9%
3h2dB00 3.40.1550.10 Alpha Beta › 3-Layer(aba) Sandwich › Chemotaxis protein chec › CheC-like 0.54 45.0 3.78e-01 100.0% 52.6%
2bwnB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.52 45.0 3.72e-01 96.5% 71.7%
1s55A00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.52 36.0 3.06e-01 98.8% 41.0%
ECOD (16)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5030887 304.112.1.0 ↗ a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.78 60.0 4.91e-01 80.2% 56.0%
4635782 331.2.1.0 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.65 50.0 4.73e-01 83.7% 68.3%
3281849 303.1.1.3 ↗ a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › DUF4189 0.60 37.0 3.46e-01 100.0% 46.0%
5011354 316.1.1.39 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DUF2204 0.59 49.0 3.84e-01 91.9% 41.6%
4942869 303.1.1.1 ↗ a+b four layers › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › Pyruvoyl-dependent histidine and arginine decarboxylases › PvlArgDC 0.58 46.0 3.75e-01 100.0% 44.7%
3276755 2008.1.1.91 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NARG2_C 0.57 44.0 2.87e-01 82.6% 83.4%
4374005 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 41.0 3.79e-01 81.4% 86.1%
3602384 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.54 45.0 4.03e-01 90.7% 88.3%
4949748 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.52 40.0 3.57e-01 87.2% 56.8%
5047816 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 43.0 3.70e-01 89.5% 83.0%
3999432 11.2.1.52 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2_nem 0.52 45.0 3.68e-01 100.0% 80.0%
3838738 304.39.1.1 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.52 40.0 3.61e-01 88.4% 58.4%
5077058 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 0.52 37.0 3.37e-01 77.9% 96.8%
4999281 223.2.1.20 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_1 0.51 42.0 3.55e-01 89.5% 81.4%
3483062 221.1.1.116 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Ubiquitin_6 0.51 45.0 4.04e-01 100.0% 80.0%
3787001 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.50 42.0 3.41e-01 91.9% 77.0%