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QDP52169.1

Arc-Vir

MK892597__QDP52169.1__Unbinned2902contig1001-11__00012

Identity

Accession:
MK892597 ↗
Protein ID:
QDP52169.1 ↗
Kingdom:
archaea

Quality

85.1 mean pLDDT

Taxonomy

Prokaryotic_dsDNA_virus_sp.

TaxID: 2591644

Cluster

View cluster (166 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 29-51_78-180_278-305
PDB
Domain cluster: rep: IMGVR_UViG_3300002120_000098-3300002120-C687J26616_100029157__D29-50_74-150_259-304
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17236.9 best SU10_MCP 63.2 4.00e-17 68.2% 28.9%
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2e0zA01 3.30.2400.20 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.85 50.0 5.98e-01 99.4% 84.1%
1ohgA01 3.30.2400.10 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › Major capsid protein gp5 0.70 63.0 6.51e-01 97.4% 97.9%
3uebF00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.68 32.0 3.93e-01 81.8% 68.0%
4bbyA05 3.30.300.330 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.68 33.0 3.84e-01 89.6% 63.9%
7k0xA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 26.0 3.48e-01 81.8% 66.7%
6i9gA01 3.30.2400.30 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.64 55.0 5.36e-01 99.4% 82.2%
3dktA01 3.30.2400.30 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.64 55.0 5.35e-01 99.4% 82.2%
6vh5C03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 26.0 3.32e-01 83.8% 61.8%
4bfiB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 25.0 3.15e-01 89.0% 58.9%
2wnyA00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.62 27.0 2.91e-01 83.8% 46.0%
4kzsA01 3.10.28.20 Alpha Beta › Roll › Endonuclease I-creI › Acetamidase/Formamidase-like domains 0.61 31.0 4.26e-01 87.7% 100.0%
2nrqA00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.59 26.0 2.73e-01 88.3% 43.1%
1vr4E00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.58 35.0 4.35e-01 96.8% 97.8%
4ofyD02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 24.0 2.81e-01 83.8% 51.4%
2p5zX01 2.30.110.50 Mainly Beta › Roll › Pnp Oxidase; Chain A › 0.57 29.0 2.85e-01 89.6% 41.6%
4hudA01 3.30.2000.40 Alpha Beta › 2-Layer Sandwich › STM4215-like › Myoviridae tail sheath stabiliser 0.56 35.0 3.20e-01 89.6% 44.8%
2ogkD00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.56 25.0 2.68e-01 89.0% 43.7%
2rf4C01 3.30.1490.120 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RNA polymerase Rpb7-like, N-terminal domain 0.55 31.0 3.77e-01 88.3% 89.0%
2gjvA00 3.30.2000.10 Alpha Beta › 2-Layer Sandwich › STM4215-like › Phage tail protein-like 0.53 39.0 4.18e-01 100.0% 85.3%
3fz2A00 3.30.70.1700 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Phage minor tail protein U 0.51 37.0 3.98e-01 100.0% 89.1%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2899245 2485.3.1.10 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.82 79.0 5.84e-01 100.0% 87.9%
5080806 2485.3.1.0 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.78 73.0 5.79e-01 98.1% 95.1%
3839537 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.75 32.0 4.70e-01 87.7% 88.6%
3965498 2485.3.1.0 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.75 72.0 5.41e-01 100.0% 88.9%
3949155 2485.3.1.11 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.74 70.0 5.71e-01 100.0% 87.5%
5041371 2485.3.1.0 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.73 70.0 5.38e-01 100.0% 92.6%
4313471 2485.3.1.11 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.72 69.0 5.37e-01 100.0% 83.7%
3946670 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.71 68.0 5.42e-01 99.4% 84.7%
5081487 2485.3.1.10 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.71 67.0 5.34e-01 97.4% 94.9%
3942344 2485.3.1.19 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › PF30928 0.70 67.0 5.20e-01 100.0% 86.5%
3186484 302.1.1.0 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain 0.69 40.0 5.11e-01 79.9% 96.7%
4890673 2485.3.1.9 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.69 66.0 4.91e-01 100.0% 84.8%
3944238 2485.3.1.7 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.69 65.0 5.20e-01 100.0% 94.7%
4419286 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.69 28.0 3.55e-01 89.0% 61.3%
4884207 2485.3.1.7 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.69 64.0 5.12e-01 100.0% 88.3%
2989506 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.68 65.0 5.08e-01 100.0% 88.8%
2989372 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.68 65.0 5.03e-01 100.0% 84.9%
2995627 2485.3.1.7 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.68 64.0 5.03e-01 100.0% 87.7%
2995325 2485.3.1.9 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.67 63.0 4.68e-01 100.0% 85.9%
2989356 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 63.0 4.94e-01 100.0% 88.8%
4959038 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 0.66 30.0 3.91e-01 88.3% 75.3%
2989340 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 62.0 4.79e-01 100.0% 83.8%
2989363 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.65 62.0 4.80e-01 100.0% 88.6%
3952452 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.65 61.0 4.83e-01 99.4% 84.6%
5081698 2485.3.1.18 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.64 61.0 4.75e-01 100.0% 90.8%
194954 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.64 60.0 5.11e-01 99.4% 88.1%
2842229 2485.3.1.9 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.63 59.0 4.41e-01 100.0% 87.4%
4955362 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.63 59.0 5.07e-01 99.4% 90.6%
4991535 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.62 58.0 4.90e-01 99.4% 86.9%
2553816 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.62 57.0 4.73e-01 100.0% 85.7%
2831773 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.61 57.0 4.70e-01 100.0% 85.3%
4031028 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.61 57.0 4.62e-01 100.0% 79.3%
5011908 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.61 57.0 4.85e-01 99.4% 85.0%
3895213 11.1.1.96 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.61 26.0 3.09e-01 89.0% 55.2%
2724409 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.61 56.0 4.65e-01 100.0% 85.7%
3270041 872.3.1.7 ↗ a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_4 0.60 38.0 4.53e-01 98.1% 93.3%
5054678 304.126.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.59 24.0 3.27e-01 90.3% 70.7%
3480223 11.1.1.3 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ig 0.54 32.0 3.14e-01 88.3% 53.3%
D2 medium residues 181-223_240-277_306-321
PDB
Domain cluster: rep: MG976803.1__AVP40105.1__PSH2311_008__00008__D1-128
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF17236.9 best SU10_MCP 61.7 1.20e-16 91.8% 31.6%
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3bjqA00 3.90.1690.10 Alpha Beta › Alpha-Beta Complex › phage-related protein like fold › phage-related protein like domain 0.80 73.0 5.12e-01 100.0% 54.7%
2e0zC03 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.75 64.0 6.48e-01 95.9% 92.7%
2pk8A00 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.74 64.0 6.51e-01 96.9% 95.7%
3dktA02 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.70 59.0 6.00e-01 96.9% 91.6%
1yueA03 3.30.2320.40 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › 0.70 64.0 5.94e-01 100.0% 90.1%
1wz2A04 3.30.2320.20 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › Class I aminoacyl-tRNA synthetases (RS) 0.63 46.0 4.83e-01 76.3% 94.3%
2bx2L02 3.40.1260.20 Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain 0.61 48.0 4.66e-01 85.6% 89.1%
3mydA01 3.40.30.60 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › FHIPEP family, domain 1 0.60 44.0 3.81e-01 75.3% 51.4%
4x9xA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.60 45.0 4.21e-01 80.4% 90.8%
1epuA01 3.40.50.2060 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Sec1/Munc18 (SM) protein, domain 1 0.55 47.0 4.33e-01 94.8% 78.1%
6i3mG01 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 0.54 47.0 3.43e-01 96.9% 90.8%
3rosA02 3.40.309.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 2 › Aldehyde Dehydrogenase; Chain A, domain 2 0.54 47.0 3.81e-01 97.9% 82.1%
3p12A01 3.40.1650.10 Alpha Beta › 3-Layer(aba) Sandwich › RbsD-like fold › RbsD-like domain 0.53 39.0 3.66e-01 79.4% 83.1%
1bwpA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.53 40.0 3.17e-01 82.5% 67.5%
6o15A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 43.0 3.35e-01 94.8% 70.8%
1zl0B02 3.50.30.60 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › LD-carboxypeptidase A C-terminal domain-like 0.50 38.0 3.47e-01 82.5% 58.3%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2899245 2485.3.1.10 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.89 84.0 5.49e-01 99.0% 47.3%
3965498 2485.3.1.0 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.89 83.0 5.55e-01 99.0% 50.3%
1877546 2485.3.1.0 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.82 75.0 5.13e-01 96.9% 51.0%
333200 2485.3.1.1 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_E 0.81 74.0 5.13e-01 100.0% 55.4%
5083079 2485.3.1.3 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.79 72.0 4.84e-01 96.9% 43.4%
4955362 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.77 68.0 5.05e-01 95.9% 54.7%
2553816 2485.3.1.2 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.75 68.0 4.87e-01 97.9% 47.2%
11367 2485.3.1.6 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › ENCP4 0.74 64.0 6.51e-01 96.9% 95.7%
2048179 2485.3.1.8 ↗ a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › P22_CoatProtein 0.72 49.0 3.76e-01 70.1% 37.2%
4528694 298.4.1.2 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.66 54.0 4.90e-01 97.9% 65.4%
4101982 298.4.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.66 46.0 3.83e-01 96.9% 40.6%
5042361 3008.1.1.0 ↗ a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.66 47.0 4.92e-01 75.3% 96.7%
4481707 298.4.1.2 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.65 53.0 5.04e-01 97.9% 73.9%
4973362 314.1.1.0 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.63 55.0 3.81e-01 99.0% 34.1%
4099448 298.4.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › vATP-synt_E 0.62 47.0 4.66e-01 97.9% 78.0%
4610422 314.1.1.2 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2b 0.61 53.0 3.71e-01 99.0% 34.9%
4166518 1.1.1.33 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › PF27692 0.60 48.0 4.45e-01 85.6% 77.6%
4935140 3008.1.1.0 ↗ a+b three layers › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › A subdomain in the anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.60 47.0 4.80e-01 95.9% 86.3%
3882604 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.53 46.0 3.43e-01 97.9% 75.5%
3791010 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.53 36.0 3.36e-01 75.3% 55.2%
5031747 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.52 37.0 3.62e-01 75.3% 72.7%
4960578 7512.1.1.30 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_4 0.52 44.0 3.48e-01 94.8% 62.4%
3604161 2007.1.10.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › PrpR receptor domain-like 0.52 38.0 3.84e-01 76.3% 90.5%
5066887 2007.1.10.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › PrpR receptor domain-like 0.50 37.0 3.62e-01 76.3% 79.0%