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NC_019405.1__YP_006988164.1__D865_gp150__00268

Bact-Vir

NC_019405.1__YP_006988164.1__D865_gp150__00268

Identity

Accession:
NC_019405 ↗
Kingdom:
phage

Quality

68.1 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 4-83
PDB
D2 medium residues 86-117
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1c0wA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.94 73.0 5.42e-01 84.4% 37.0%
3tgnB02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.92 71.0 5.60e-01 84.4% 42.9%
2isyA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.92 71.0 4.51e-01 84.4% 19.6%
2bpoA04 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.92 79.0 4.95e-01 100.0% 19.8%
4ijaA01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.92 71.0 5.56e-01 84.4% 42.9%
1ou0A00 3.40.50.10230 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase 0.91 75.0 4.50e-01 90.6% 15.3%
4ki9A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.91 78.0 4.88e-01 96.9% 19.7%
2qtlA03 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.90 77.0 4.87e-01 100.0% 20.6%
1sfxB00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.90 69.0 4.68e-01 84.4% 26.0%
1oaiA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.89 75.0 6.12e-01 96.9% 52.5%
1owfA00 4.10.520.10 Few Secondary Structures › Irregular › HU Protein; Chain A › IHF-like DNA-binding proteins 0.89 73.0 5.20e-01 96.9% 32.3%
3kp1E02 1.10.8.1000 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ornithine 4,5 aminomutase S component, alpha subunit-like 0.89 71.0 5.47e-01 90.6% 81.4%
2x4hA00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.88 70.0 4.53e-01 90.6% 21.7%
2dzlA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.88 73.0 5.80e-01 96.9% 47.0%
1mkmB01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.88 67.0 4.99e-01 84.4% 35.5%
3dteA02 1.10.10.1030 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › IrrE, HTH domain 0.88 67.0 6.29e-01 87.5% 68.3%
6az1a00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.88 66.0 5.06e-01 84.4% 37.5%
1s8nA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.88 72.0 6.09e-01 100.0% 55.2%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.87 71.0 5.17e-01 96.9% 34.4%
1f20A01 3.40.50.80 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module 0.86 71.0 4.52e-01 100.0% 19.6%
1qo0D02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.86 69.0 6.38e-01 100.0% 69.6%
1zv1A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.86 68.0 5.66e-01 93.8% 55.9%
2h09A01 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.85 64.0 4.96e-01 84.4% 38.0%
1s3jA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.84 63.0 5.04e-01 84.4% 42.2%
2afrA00 3.40.50.10230 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Cobalamin biosynthesis CobH/CbiC, precorrin-8X methylmutase 0.81 72.0 4.29e-01 100.0% 14.8%
2da7A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.80 63.0 4.94e-01 93.8% 43.7%
2da3A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.79 62.0 5.62e-01 93.8% 63.8%
1zx3A01 1.10.287.1020 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › NE0241-like 0.78 63.0 4.78e-01 100.0% 40.0%
2kt0A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.77 60.0 5.51e-01 93.8% 63.8%
2da4A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.77 64.0 5.23e-01 100.0% 50.0%
2is6A04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.77 61.0 3.97e-01 96.9% 23.6%
2ba3A01 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.75 56.0 5.69e-01 87.5% 93.1%
7by3B01 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.75 61.0 4.28e-01 100.0% 28.9%
3c24A02 1.10.3640.10 Mainly Alpha › Orthogonal Bundle › putative oxidoreductase fold › Semialdehyde dehydrogenase-like, C-terminal 0.75 61.0 4.47e-01 100.0% 32.0%
6cnzF00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.75 61.0 3.97e-01 100.0% 19.6%
2d7eA01 3.40.1440.60 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › PriA, 3(prime) DNA-binding domain 0.74 56.0 4.30e-01 96.9% 35.6%
2oap202 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.73 59.0 3.48e-01 100.0% 80.1%
4h15A00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.73 60.0 3.56e-01 100.0% 27.2%
1y0nA00 1.10.10.610 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › YehU-like 0.73 56.0 4.44e-01 100.0% 39.4%
1v92A00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.73 54.0 5.07e-01 93.8% 65.2%
2ld5A00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.73 57.0 4.67e-01 93.8% 44.8%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.71 55.0 4.58e-01 96.9% 46.3%
3vokA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.70 58.0 3.70e-01 100.0% 42.6%
6xzqA01 3.40.91.90 Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Influenza RNA-dependent RNA polymerase subunit PA, endonuclease domain 0.68 54.0 3.58e-01 100.0% 56.8%
1mw9X02 1.10.460.10 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; domain 2 › Topoisomerase I, domain 2 0.68 49.0 3.29e-01 93.8% 18.4%
4k08A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.68 53.0 3.53e-01 93.8% 21.5%
3urrA00 3.40.930.10 Alpha Beta › 3-Layer(aba) Sandwich › Mannitol-specific EII; Chain A › Mannitol-specific EII; Chain A 0.68 52.0 3.54e-01 100.0% 21.1%
1dgjA04 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.67 51.0 3.44e-01 100.0% 20.3%
2k89A00 3.10.20.870 Alpha Beta › Roll › Ubiquitin-like (UB roll) › PFU (PLAA family ubiquitin binding), C-terminal domain 0.66 50.0 3.98e-01 93.8% 46.3%
1tfeA02 1.10.286.20 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › 0.64 51.0 4.77e-01 100.0% 77.8%
1tuoA03 3.40.120.10 Alpha Beta › 3-Layer(aba) Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 3 › Alpha-D-Glucose-1,6-Bisphosphate, subunit A, domain 3 0.61 49.0 3.51e-01 100.0% 95.7%
3gbhB00 3.40.109.10 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase 0.61 45.0 2.82e-01 90.6% 13.1%
7ymiD01 1.20.85.10 Mainly Alpha › Up-down Bundle › Photosynthetic Reaction Center, subunit M; domain 1 › Photosystem II protein D1-like 0.61 51.0 3.22e-01 100.0% 39.4%
3iylU02 1.10.287.1520 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 49.0 4.33e-01 100.0% 64.2%
3khyA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 51.0 3.16e-01 100.0% 24.9%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3993520 7558.1.1.1 a/b three-layered sandwiches › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Acyltransferase 0.96 86.0 4.88e-01 100.0% 10.9%
4981837 2002.1.1.120 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.96 90.0 4.85e-01 100.0% 16.5%
4083034 3430.1.1.1 a+b complex topology › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › Primosome assembly protein PriA 3' DNA-binding domain › PriA_3primeBD 0.95 76.0 5.06e-01 87.5% 25.5%
4499300 7558.1.1.0 a/b three-layered sandwiches › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase 0.95 84.0 4.55e-01 100.0% 6.6%
3388953 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.94 82.0 6.05e-01 100.0% 40.0%
4145683 7558.1.1.1 a/b three-layered sandwiches › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Acyltransferase 0.94 83.0 4.66e-01 100.0% 10.2%
4379527 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.93 83.0 5.96e-01 100.0% 90.6%
4928641 101.1.2.70 alpha arrays › HTH › HTH › winged helix domain › PqqD 0.91 78.0 5.84e-01 96.9% 41.3%
4088912 2004.1.1.188 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Cytidylate_kin2 0.91 76.0 4.63e-01 96.9% 16.4%
5078327 2006.1.4.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.91 76.0 5.00e-01 100.0% 24.1%
None 0.90 78.0 4.47e-01 100.0% 11.4%
None 0.90 75.0 4.59e-01 96.9% 16.8%
5001122 2004.1.1.194 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C_2 0.88 72.0 4.58e-01 100.0% 20.0%
4978168 2006.1.4.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.86 70.0 4.61e-01 100.0% 23.2%
5012302 2006.1.1.1 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.85 69.0 4.19e-01 100.0% 14.9%
3173093 103.1.1.22 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.85 69.0 5.74e-01 96.9% 51.7%
3959245 103.12.1.1 alpha arrays › RuvA-C › ANTAR domain › ANTAR domain › ANTAR 0.85 68.0 5.14e-01 100.0% 37.6%
3497310 103.1.1.142 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_Sid-3 0.85 66.0 6.23e-01 93.8% 72.5%
3897595 103.1.1.22 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › ARI1_UBAl 0.84 68.0 5.49e-01 96.9% 47.7%
4246280 589.1.2.1 alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › TF C-terminus (Pfam 05698) › Trigger_C 0.83 71.0 4.28e-01 100.0% 16.6%
3493528 109.4.1.2245 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF27652 0.82 65.0 3.65e-01 100.0% 7.8%
3481218 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.82 65.0 3.68e-01 100.0% 8.2%
3399413 243.7.1.0 a+b two layers › Cystatin-like › Cytochrome b5-like heme/steroid binding domain › Cytochrome b5-like heme/steroid binding domain 0.82 67.0 4.95e-01 100.0% 62.2%
4972774 2006.1.4.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.81 62.0 4.26e-01 100.0% 23.7%
3271267 568.1.1.0 few secondary structure elements › p8-MTCP1-related › p8-MTCP1-related › p8-MTCP1-related 0.80 55.0 4.46e-01 75.0% 38.3%
3270733 108.1.1.73 alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7 0.80 61.0 4.71e-01 100.0% 36.5%
5081457 101.1.11.0 alpha arrays › HTH › HTH › Ribbon-helix-helix 0.78 60.0 6.18e-01 90.6% 100.0%
5031174 102.1.1.0 alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like 0.78 66.0 5.21e-01 100.0% 47.1%
3498975 103.1.1.0 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.78 59.0 5.59e-01 100.0% 68.9%
4021339 7579.1.1.0 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases 0.78 61.0 3.37e-01 96.9% 6.4%
4967672 2006.1.4.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.77 60.0 4.07e-01 100.0% 22.9%
4380785 2484.1.1.32 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FGGY_C 0.77 61.0 3.67e-01 96.9% 13.3%
2081534 101.1.11.2 alpha arrays › HTH › HTH › Ribbon-helix-helix › RHH_1 0.76 63.0 4.94e-01 100.0% 44.3%
3730715 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.75 60.0 5.27e-01 100.0% 65.5%
3955892 101.1.11.2 alpha arrays › HTH › HTH › Ribbon-helix-helix › RHH_1 0.75 64.0 5.59e-01 100.0% 64.0%
4375217 101.1.11.0 alpha arrays › HTH › HTH › Ribbon-helix-helix 0.74 62.0 4.65e-01 100.0% 38.7%
3594325 103.1.1.0 alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.74 56.0 5.10e-01 96.9% 60.0%
3278996 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.74 58.0 4.29e-01 100.0% 32.0%
5011906 101.1.11.0 alpha arrays › HTH › HTH › Ribbon-helix-helix 0.73 58.0 4.98e-01 96.9% 54.5%
4993076 2006.1.4.2 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › PIN 0.73 58.0 3.97e-01 100.0% 25.4%
3375753 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.72 55.0 3.54e-01 100.0% 17.0%
4632125 101.1.11.30 alpha arrays › HTH › HTH › Ribbon-helix-helix › FitA-like_RHH 0.71 58.0 4.65e-01 100.0% 47.1%
3710719 103.4.1.0 alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.71 59.0 4.82e-01 100.0% 53.8%
5058985 7064.1.1.1 alpha bundles › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › Transmembrane domain of VIT1 › VIT1 0.70 59.0 3.76e-01 96.9% 20.6%
3969984 101.1.1.0 alpha arrays › HTH › HTH › Three-helical HTH 0.59 48.0 3.95e-01 100.0% 56.9%