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IMGVR_UViG_3300005099_000002-3300005099-Ga0072682_10056722

Arc-Vir

IMGVR_UViG_3300005099_000002-3300005099-Ga0072682_10056722

Quality

77.0 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 78-102_121-199_315-326
PDB
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ohgA01 3.30.2400.10 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › Major capsid protein gp5 0.80 75.0 6.83e-01 97.4% 95.2%
1x0tA02 6.20.50.20 Special › Other non-globular › N-terminal domain of TfIIb › 0.65 18.0 2.85e-01 75.0% 57.8%
3dktA01 3.30.2400.30 Alpha Beta › 2-Layer Sandwich › Major capsid protein gp5 fold › 0.64 59.0 5.14e-01 100.0% 79.9%
3bjqA00 3.90.1690.10 Alpha Beta › Alpha-Beta Complex › phage-related protein like fold › phage-related protein like domain 0.57 52.0 3.87e-01 100.0% 86.8%
3qkbA00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.57 40.0 4.45e-01 98.3% 90.4%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5041371 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.87 84.0 5.89e-01 100.0% 90.3%
3949155 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.83 80.0 5.88e-01 100.0% 85.7%
3965498 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.82 78.0 5.44e-01 100.0% 87.3%
3088027 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.80 76.0 5.62e-01 100.0% 85.1%
2899245 2485.3.1.10 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.80 76.0 5.22e-01 100.0% 86.7%
3944238 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.80 76.0 5.49e-01 100.0% 92.6%
3026399 3555.1.1.1 a+b three layers › Major capsid protein GP7 › Major capsid protein GP7 › Major capsid protein GP7 › GP7 0.80 75.0 5.21e-01 100.0% 57.3%
2651377 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.79 75.0 5.38e-01 100.0% 84.8%
4313471 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.78 75.0 5.33e-01 100.0% 82.3%
3942344 2485.3.1.19 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › PF30928 0.78 73.0 5.26e-01 100.0% 84.8%
5080806 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.78 72.0 5.26e-01 98.3% 93.7%
2989363 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.78 72.0 5.19e-01 100.0% 87.0%
5081487 2485.3.1.10 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF5309 0.77 70.0 5.21e-01 97.4% 93.4%
2538948 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.77 72.0 5.17e-01 100.0% 83.9%
3946670 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.77 72.0 5.27e-01 99.1% 82.2%
2989289 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.77 72.0 5.06e-01 100.0% 83.0%
2995627 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.76 71.0 5.15e-01 100.0% 86.0%
2989356 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.76 71.0 5.16e-01 100.0% 87.4%
2989506 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.76 71.0 5.16e-01 100.0% 87.1%
4241362 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.76 70.0 5.11e-01 99.1% 86.1%
2989372 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.76 71.0 5.11e-01 100.0% 83.6%
2841509 2485.3.1.12 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF6260 0.76 71.0 5.15e-01 100.0% 86.7%
2989340 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.75 70.0 4.97e-01 100.0% 82.5%
4884207 2485.3.1.7 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Major_capside 0.74 69.0 5.04e-01 100.0% 86.2%
4890673 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.73 68.0 4.75e-01 100.0% 83.7%
3583655 2485.3.1.5 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp23 0.72 68.0 4.81e-01 100.0% 86.9%
2639625 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.72 67.0 4.95e-01 100.0% 83.9%
3513770 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.71 66.0 4.76e-01 100.0% 88.9%
2842229 2485.3.1.9 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › DUF4043 0.70 64.0 4.45e-01 100.0% 86.6%
5081698 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.69 65.0 4.65e-01 100.0% 88.5%
4988094 2485.3.1.18 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid_4 0.69 65.0 4.87e-01 99.1% 85.5%
3952452 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 60.0 4.47e-01 100.0% 83.6%
5011908 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.66 60.0 4.69e-01 99.1% 82.9%
4955362 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.66 60.0 4.72e-01 99.1% 88.5%
5083777 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.66 60.0 4.39e-01 99.1% 82.3%
2640765 2485.3.1.1 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_E 0.65 59.0 4.16e-01 100.0% 90.1%
4991535 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.65 60.0 4.60e-01 99.1% 84.9%
3501742 2485.3.1.21 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phi29_MCP 0.64 57.0 4.23e-01 100.0% 89.4%
3977525 2485.3.1.4 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_P2 0.64 57.0 4.12e-01 99.1% 82.3%
2724409 2485.3.1.2 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Linocin_M18 0.64 59.0 4.45e-01 100.0% 83.0%
2546181 2485.3.1.13 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Gp13-like 0.63 58.0 4.17e-01 100.0% 76.5%
2666180 2485.3.1.4 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_cap_P2 0.63 52.0 4.32e-01 88.8% 62.1%
4031028 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.62 56.0 4.22e-01 100.0% 77.9%
3587769 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.61 55.0 4.12e-01 99.1% 84.5%
3588084 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.59 52.0 3.88e-01 99.1% 83.3%
D2 medium residues 200-254_271-314_327-345
PDB
CATH (17)
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 0.81 76.0 5.54e-01 100.0% 60.1%
2e0zC03 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.77 61.0 6.69e-01 97.5% 100.0%
2pk8A00 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.73 54.0 6.00e-01 89.8% 95.7%
1ohgA02 3.30.2320.10 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › hypothetical protein PF0899 domain 0.71 60.0 6.37e-01 99.2% 100.0%
3bqwA02 3.30.1930.10 Alpha Beta › 2-Layer Sandwich › capsid protein of prophage fold › capsid protein of prophage domain 0.62 58.0 5.53e-01 100.0% 100.0%
3k12D00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.61 42.0 4.21e-01 70.3% 86.7%
3lybC00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.60 42.0 4.03e-01 71.2% 99.3%
4efaE02 3.30.2320.30 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal 0.58 46.0 4.48e-01 92.4% 76.7%
2dm9A00 3.30.2320.30 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › ATP synthase, E subunit, C-terminal 0.58 42.0 4.23e-01 90.7% 75.4%
2w02B02 2.30.30.1240 Mainly Beta › Roll › SH3 type barrels. › AscD, thumb domain, four stranded beta-sheet 0.57 29.0 3.57e-01 88.1% 80.9%
3pl5A03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.53 39.0 3.96e-01 92.4% 76.0%
4hetA01 2.60.40.2340 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 34.0 3.69e-01 99.2% 81.9%
3obwA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.52 37.0 3.72e-01 72.9% 72.9%
2kucA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 34.0 3.46e-01 72.9% 66.9%
1h7mA00 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.51 36.0 3.85e-01 94.1% 88.7%
4o1gA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 41.0 3.03e-01 88.1% 82.4%
3v4dB00 3.30.1330.40 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › RutC-like 0.50 42.0 4.19e-01 93.2% 88.0%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3965498 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.88 84.0 5.91e-01 100.0% 54.6%
2968064 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.88 83.0 5.74e-01 100.0% 58.4%
4313471 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.87 83.0 5.97e-01 100.0% 51.3%
3949155 2485.3.1.11 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › SrpI-like 0.87 82.0 6.11e-01 99.2% 57.4%
5083777 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.78 73.0 5.28e-01 100.0% 48.7%
3513770 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.77 71.0 5.18e-01 99.2% 58.1%
3277785 2485.3.1.0 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 0.76 69.0 5.22e-01 97.5% 49.2%
2129825 2485.3.1.3 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › Phage_capsid 0.75 69.0 5.14e-01 100.0% 52.8%
11367 2485.3.1.6 a+b three layers › Thioredoxin-like › Major capsid protein gp5 › Major capsid protein gp5 › ENCP4 0.73 54.0 6.00e-01 89.8% 95.7%
4125320 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.68 42.0 4.84e-01 89.0% 85.9%
1807471 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 43.0 4.33e-01 89.8% 65.5%
4526172 3464.1.1.1 extended segments › Helical region in V-type proton ATPase subunit E › Helical region in V-type proton ATPase subunit E › Helical region in V-type proton ATPase subunit E › vATP-synt_E 0.65 41.0 3.52e-01 90.7% 40.5%
4935588 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 0.64 45.0 4.13e-01 91.5% 55.6%
4202847 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.63 44.0 4.03e-01 89.8% 56.0%
4113623 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.63 41.0 3.54e-01 91.5% 42.8%
4097188 298.4.1.2 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E › FliH 0.63 43.0 4.50e-01 93.2% 75.5%
4070529 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 0.63 43.0 3.90e-01 91.5% 51.9%
4208534 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 42.0 4.26e-01 91.5% 69.6%
5028922 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.61 42.0 4.22e-01 98.3% 70.0%
5069284 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 52.0 3.84e-01 100.0% 35.5%
5049320 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.60 44.0 3.79e-01 91.5% 48.6%
4947957 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 0.60 50.0 3.68e-01 100.0% 33.2%
4933117 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 0.59 42.0 3.61e-01 92.4% 45.1%
4412841 298.4.1.0 a+b two layers › FwdE/GAPDH domain-like › V-type ATPase subunit E › V-type ATPase subunit E 0.59 43.0 4.11e-01 92.4% 65.9%
5066661 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 0.59 39.0 4.45e-01 89.8% 90.0%
4933257 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 0.59 50.0 3.67e-01 100.0% 33.6%
4122989 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 0.58 39.0 3.52e-01 91.5% 48.5%
4263687 298.3.1.0 a+b two layers › FwdE/GAPDH domain-like › Serine dehydratase beta chain-like › Serine dehydratase beta chain-like 0.56 48.0 4.47e-01 92.4% 88.0%
4031498 301.1.1.5 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › SpoU_sub_bind 0.54 33.0 4.04e-01 70.3% 100.0%
3587520 301.1.1.6 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › MRM3-like_sub_bind 0.53 36.0 3.89e-01 93.2% 82.0%
4994706 301.1.1.1 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › Ribosomal_L7Ae 0.53 36.0 3.86e-01 73.7% 82.0%
5036431 301.1.1.1 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › Ribosomal_L7Ae 0.52 34.0 3.85e-01 94.9% 91.8%
4999732 4002.1.1.5 alpha bundles › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes › ADH_Fe_C 0.52 45.0 3.14e-01 98.3% 42.4%
4996500 4002.1.1.0 alpha bundles › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes › alpha-helical domain in dehydroquinate synthase-like enzymes 0.52 44.0 3.94e-01 98.3% 96.1%
3172445 2007.1.7.1 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Rossmann-like domain in dehydroquinate synthase-like enzymes › Fe-ADH 0.51 45.0 3.98e-01 100.0% 96.1%
3379969 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 34.0 3.67e-01 72.0% 81.0%
4986644 7590.1.1.1 a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Peptidase_M29 0.50 41.0 3.77e-01 87.3% 85.8%
3344156 2008.1.1.7 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › ERCC4 0.50 36.0 3.07e-01 74.6% 84.6%