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IMGVR_UViG_3300002149_000177-3300002149-C687J26657_100015587

Arc-Vir

IMGVR_UViG_3300002149_000177-3300002149-C687J26657_100015587

Quality

94.5 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 high residues 3-106
PDB
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3b0xA03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.80 64.0 6.43e-01 100.0% 82.9%
2w9mB03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.80 56.0 6.26e-01 100.0% 92.6%
1knyA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.72 48.0 4.54e-01 100.0% 56.8%
4ebjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.72 50.0 4.61e-01 100.0% 57.8%
1miwA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.71 53.0 4.86e-01 99.0% 60.4%
3jyyA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.69 55.0 5.07e-01 99.0% 66.4%
3aqlA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.68 52.0 4.69e-01 100.0% 59.3%
5hr9A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.68 61.0 6.08e-01 100.0% 93.5%
4p4mA02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.66 61.0 5.89e-01 100.0% 97.4%
2bcqA03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.65 60.0 5.64e-01 100.0% 85.4%
3oguA03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 60.0 5.63e-01 100.0% 87.8%
2rffA00 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 45.0 4.47e-01 100.0% 68.5%
1r89A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 53.0 4.98e-01 100.0% 72.7%
1ou5A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.63 50.0 4.57e-01 100.0% 63.6%
2ihmB03 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.63 58.0 5.62e-01 100.0% 95.6%
6iw6A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.62 54.0 5.42e-01 100.0% 92.6%
3upsA00 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.62 49.0 4.85e-01 98.1% 81.5%
4fh3A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.62 56.0 5.30e-01 100.0% 85.6%
2b4vA02 3.30.460.50 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › 0.60 54.0 5.20e-01 99.0% 95.8%
6p8uA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.58 52.0 4.71e-01 100.0% 77.8%
4s3nA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.57 51.0 4.59e-01 100.0% 78.9%
2cxcA02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.55 36.0 4.14e-01 95.2% 100.0%
1xtzA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.55 36.0 3.99e-01 97.1% 83.3%
5nfmA00 3.30.300.90 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like 0.54 36.0 4.11e-01 98.1% 94.7%
1ecsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.53 47.0 4.49e-01 100.0% 89.2%
7lt2A01 3.30.460.90 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › 0.53 46.0 3.58e-01 100.0% 71.0%
4oagB02 3.30.460.90 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › 0.51 45.0 3.76e-01 100.0% 81.7%
1nkiA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.50 43.0 4.03e-01 100.0% 75.4%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4957215 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.84 64.0 5.27e-01 100.0% 48.2%
4263916 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.80 66.0 5.35e-01 100.0% 49.4%
1240966 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.79 63.0 5.10e-01 100.0% 46.5%
5054232 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.72 47.0 4.89e-01 100.0% 70.7%
5058410 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.72 49.0 4.95e-01 100.0% 69.5%
5054368 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.70 38.0 4.06e-01 97.1% 60.0%
5057929 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.70 48.0 4.57e-01 100.0% 60.8%
5030238 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.70 46.0 4.67e-01 100.0% 66.7%
4948129 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.70 48.0 4.85e-01 97.1% 70.5%
5054115 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.70 46.0 4.59e-01 99.0% 65.7%
5005557 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.69 45.0 4.28e-01 100.0% 55.8%
5054809 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.69 45.0 4.49e-01 98.1% 64.8%
5028843 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.68 44.0 4.40e-01 94.2% 64.8%
4278249 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.67 56.0 5.11e-01 100.0% 68.9%
5052912 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.67 48.0 4.33e-01 100.0% 55.7%
3594093 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.66 61.0 4.70e-01 100.0% 49.1%
5039191 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.66 48.0 4.83e-01 100.0% 74.1%
4948009 316.1.1.81 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › tRNA_NucTransf2 0.65 57.0 5.05e-01 100.0% 66.0%
3508699 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.65 54.0 4.70e-01 100.0% 60.0%
5039133 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.64 48.0 4.82e-01 100.0% 78.1%
5047378 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.63 58.0 4.91e-01 100.0% 61.8%
3623131 316.1.1.25 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.63 58.0 4.63e-01 100.0% 69.0%
3194686 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.63 58.0 4.61e-01 100.0% 54.0%
3612000 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.63 57.0 4.43e-01 100.0% 50.7%
3595889 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.63 57.0 5.24e-01 100.0% 99.3%
3245748 316.1.1.25 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.63 58.0 4.49e-01 100.0% 64.2%
5058509 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.62 48.0 4.27e-01 100.0% 57.9%
3707158 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.62 57.0 4.66e-01 100.0% 78.4%
4934691 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.62 45.0 4.57e-01 100.0% 78.0%
3270745 316.1.1.25 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.62 57.0 4.79e-01 100.0% 67.1%
5052875 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.62 45.0 4.58e-01 98.1% 77.7%
3610425 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.61 56.0 4.30e-01 100.0% 53.9%
3593742 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.61 55.0 4.53e-01 100.0% 62.1%
5054501 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.61 46.0 4.03e-01 100.0% 52.5%
4025997 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.61 55.0 4.38e-01 100.0% 54.8%
4809709 211.1.1.33 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › RsfS 0.61 46.0 4.51e-01 95.2% 73.0%
3276465 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.61 55.0 4.39e-01 100.0% 53.7%
4933022 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.60 43.0 4.19e-01 100.0% 67.0%
4943888 316.1.1.27 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.60 40.0 4.53e-01 97.1% 100.0%
2755458 316.1.1.26 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › SMODS 0.60 55.0 4.33e-01 100.0% 49.8%
3601942 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.60 47.0 4.11e-01 99.0% 54.6%
3416827 316.1.1.16 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DZF_N 0.59 54.0 4.39e-01 100.0% 61.7%
3957910 316.1.1.26 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › SMODS 0.59 44.0 4.22e-01 83.7% 67.5%
5029780 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.58 47.0 4.25e-01 100.0% 65.0%
3736889 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.57 51.0 4.47e-01 100.0% 96.9%
4224302 316.1.1.54 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › RlaP 0.57 34.0 3.36e-01 83.7% 55.5%
3567876 316.1.1.20 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › OAS1_C 0.56 50.0 4.21e-01 100.0% 63.3%
5011133 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.56 47.0 4.40e-01 100.0% 75.2%
3604241 2004.1.1.30 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.55 44.0 3.58e-01 86.5% 83.0%
5057945 316.1.1.0 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.55 45.0 4.02e-01 95.2% 62.8%
4977056 316.1.1.2 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.54 48.0 4.13e-01 100.0% 61.8%
3974097 327.5.1.2 a+b two layers › Alpha-lytic protease prodomain-like › a+b domain in acetyl-CoA synthetase-like proteins › a+b domain in acetyl-CoA synthetase-like proteins › AMP-binding_C 0.50 39.0 3.74e-01 100.0% 71.7%
D2 high residues 111-177
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF14791.12 best DNA_pol_B_thumb 29.3 9.00e-07 94.0% 81.0%
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3au2A04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.90 67.0 6.79e-01 83.6% 80.0%
4p4mA03 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.85 79.0 6.99e-01 100.0% 93.5%
2bcqA04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.83 66.0 6.63e-01 83.6% 95.5%
2ihmA04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.83 75.0 7.50e-01 100.0% 95.7%
5hr9A02 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.82 73.0 7.22e-01 100.0% 94.2%
2w9mA04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.81 61.0 6.62e-01 89.6% 98.2%
3pm9A01 3.30.43.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 2 › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase, domain 2 0.55 38.0 3.45e-01 73.1% 64.5%
3ui3A02 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.02e-01 94.0% 70.4%
3lvqE02 1.25.40.950 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 28.0 2.72e-01 73.1% 43.2%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1240966 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.90 79.0 5.56e-01 100.0% 33.7%
3172392 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.90 79.0 5.15e-01 100.0% 24.7%
4263916 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.89 80.0 5.69e-01 100.0% 36.1%
3276647 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.86 80.0 5.60e-01 100.0% 37.0%
3716929 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.86 79.0 5.19e-01 98.5% 36.3%
4957215 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.86 77.0 5.60e-01 100.0% 38.2%
3453703 316.1.1.24 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb,DNA_pol_B_palm 0.85 79.0 5.49e-01 100.0% 37.7%
3610425 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.85 79.0 5.30e-01 100.0% 29.4%
3714444 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.85 78.0 5.93e-01 98.5% 64.8%
1952984 316.1.1.23 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DNA_pol_B_thumb 0.82 72.0 5.22e-01 100.0% 36.7%
3333157 376.1.1.21 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_2 0.63 32.0 3.35e-01 82.1% 53.3%
4979849 205.1.1.0 a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.57 44.0 4.43e-01 97.0% 82.9%
3744638 148.1.3.0 alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.56 44.0 4.19e-01 100.0% 71.2%
3267934 3525.1.1.1 alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › BET 0.55 43.0 4.36e-01 100.0% 90.8%
3724437 327.11.2.44 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › PF28723 0.52 39.0 4.24e-01 95.5% 100.0%