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NC_049961.1__YP_009910208.1__H3010_gp29__00029

Bact-Vir

NC_049961.1__YP_009910208.1__H3010_gp29__00029

Identity

Accession:
NC_049961 ↗
Kingdom:
phage

Quality

83.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Salasmaviridae› Harambevirus› Bacillus_phage_BeachBum

TaxID: 1983461

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 70-132
PDB
Domain cluster: rep: MN082625.1__QDH50347.1__KAREZI_26__00026__D91-144
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF06720.18 best Phi-29_GP16_7 44.2 3.00e-11 100.0% 66.0%
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2bnkA00 1.10.8.600 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Phage phi29 replication organiser protein p16.7-like 0.91 80.0 8.01e-01 93.7% 92.2%
7w5gA01 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.75 62.0 3.81e-01 90.5% 20.7%
2fnaA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.71 60.0 5.65e-01 95.2% 82.9%
2z4sA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 53.0 5.11e-01 95.2% 76.4%
1l8qA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 47.0 5.07e-01 87.3% 98.0%
2c9oB03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.64 50.0 4.68e-01 95.2% 67.5%
3uk6A02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.64 50.0 4.69e-01 95.2% 67.5%
1sxjD02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.64 49.0 4.79e-01 95.2% 78.6%
3tw6B03 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.63 48.0 2.87e-01 87.3% 34.2%
3bedA00 3.40.50.510 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphotransferase system, mannose-type IIA component 0.62 54.0 4.30e-01 100.0% 96.2%
4mtdD01 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 0.61 43.0 3.87e-01 74.6% 73.9%
2n7zA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.61 41.0 3.49e-01 71.4% 45.3%
1f4qA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.60 45.0 3.51e-01 87.3% 36.6%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.58 46.0 3.27e-01 96.8% 52.5%
2fe3B01 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 0.57 41.0 3.70e-01 74.6% 72.9%
3k8uA01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.57 42.0 3.44e-01 82.5% 39.7%
4dwnA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.57 40.0 3.50e-01 74.6% 53.6%
1jqjD03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.57 45.0 4.18e-01 92.1% 72.1%
2yc3A00 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 0.57 43.0 3.02e-01 84.1% 89.0%
3gxvB00 1.10.860.10 Mainly Alpha › Orthogonal Bundle › DNAb Helicase; Chain A › DNAb Helicase; Chain A 0.56 46.0 3.78e-01 93.7% 82.9%
2p1aB01 1.20.120.450 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › dinb family like domain 0.56 50.0 3.81e-01 100.0% 48.6%
1vhnA02 1.10.1200.80 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › Putative flavin oxidoreducatase; domain 2 0.56 40.0 3.91e-01 77.8% 69.0%
1c9bA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.55 42.0 3.73e-01 84.1% 97.9%
1pjqA03 1.10.8.210 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Sirohaem synthase, dimerisation domain 0.54 42.0 4.22e-01 88.9% 96.9%
1uaaA02 1.10.10.160 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.54 37.0 3.56e-01 71.4% 77.0%
2hgkA01 1.20.1440.40 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › YqcC-like 0.54 37.0 3.18e-01 71.4% 91.4%
2n50A00 1.10.1200.10 Mainly Alpha › Orthogonal Bundle › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › ACP-like 0.54 34.0 3.30e-01 77.8% 51.9%
7tfmA01 1.10.1780.10 Mainly Alpha › Orthogonal Bundle › Double Clp-N motif › Clp, N-terminal domain 0.53 40.0 3.32e-01 88.9% 80.6%
3tw6A06 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.51 35.0 3.75e-01 90.5% 87.0%
6azyA01 1.10.1780.10 Mainly Alpha › Orthogonal Bundle › Double Clp-N motif › Clp, N-terminal domain 0.51 40.0 3.24e-01 88.9% 85.5%
2is6A04 1.10.486.10 Mainly Alpha › Orthogonal Bundle › PCRA; domain 4 › PCRA; domain 4 0.50 35.0 2.77e-01 76.2% 31.7%
ECOD (67)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2385 4298.1.1.1 ↗ alpha arrays › Phage replication organizer domain › Phage replication organizer domain › Phage replication organizer domain › Phi-29_GP16_7 0.93 80.0 8.10e-01 93.7% 92.1%
4077605 103.1.1.6 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C 0.78 62.0 6.36e-01 87.3% 91.5%
4351042 103.1.1.6 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C 0.75 53.0 5.48e-01 74.6% 81.4%
4204950 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.70 55.0 5.16e-01 95.2% 68.8%
3838403 327.10.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related 0.70 55.0 5.16e-01 95.2% 68.8%
4117160 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.70 55.0 5.10e-01 95.2% 68.8%
159498 108.1.1.41 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › MTIP_N 0.69 48.0 5.27e-01 82.5% 97.9%
4929054 2004.1.1.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA 0.69 47.0 3.37e-01 74.6% 23.0%
3385989 101.1.6.0 ↗ alpha arrays › HTH › HTH › TrpR 0.68 53.0 5.13e-01 95.2% 77.1%
3994346 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.68 51.0 5.32e-01 88.9% 92.7%
52232 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.68 54.0 5.12e-01 95.2% 73.3%
4939138 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 49.0 5.17e-01 87.3% 92.7%
4836804 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 47.0 5.11e-01 84.1% 100.0%
1175633 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 55.0 5.14e-01 92.1% 79.7%
4946495 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.67 47.0 3.13e-01 87.3% 17.4%
5014348 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.67 52.0 5.34e-01 92.1% 91.7%
4246144 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 52.0 4.82e-01 95.2% 67.5%
4121495 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.67 52.0 4.92e-01 95.2% 72.0%
4594380 148.1.3.49 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Hda_lid 0.66 52.0 4.86e-01 95.2% 68.8%
4028223 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.66 44.0 4.45e-01 71.4% 67.7%
4028941 148.1.3.173 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_RFC1 0.66 55.0 5.36e-01 100.0% 84.3%
4576669 148.1.3.49 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Hda_lid 0.65 51.0 4.78e-01 95.2% 68.8%
4046331 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.65 49.0 4.73e-01 93.7% 70.7%
3603655 2004.1.1.66 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase_2 0.64 54.0 3.51e-01 95.2% 22.0%
3611993 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.64 50.0 4.87e-01 98.4% 77.1%
4092407 148.1.3.198 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Bac_DnaA 0.64 53.0 3.53e-01 93.7% 79.2%
4410935 2004.1.1.35 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Bac_DnaA 0.64 53.0 3.60e-01 93.7% 85.3%
3484089 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 53.0 4.90e-01 98.4% 71.2%
3656957 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.64 49.0 4.66e-01 88.9% 87.5%
4089409 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 51.0 4.77e-01 95.2% 70.0%
3519328 148.1.3.18 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › TIP49_C 0.64 50.0 4.44e-01 95.2% 57.9%
3213555 108.1.1.28 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_6,EF-hand_7 0.64 45.0 4.41e-01 76.2% 72.9%
3644157 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.64 48.0 5.04e-01 93.7% 98.2%
4060907 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 50.0 4.70e-01 98.4% 68.8%
3186890 103.1.1.58 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_Rad5 0.63 45.0 4.92e-01 92.1% 98.0%
4458447 148.1.3.21 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_4 0.63 49.0 4.81e-01 95.2% 78.6%
3357404 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.63 47.0 4.84e-01 84.1% 88.3%
4974262 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.63 49.0 4.96e-01 93.7% 93.3%
5066354 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.63 48.0 4.98e-01 87.3% 96.4%
3724955 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.63 45.0 4.56e-01 88.9% 78.5%
4520031 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.62 51.0 3.49e-01 92.1% 86.7%
4983811 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.62 48.0 4.40e-01 87.3% 63.5%
3206303 3722.1.1.1 ↗ alpha bundles › Protein regulator of cytokinesis 1 (PRC1) rod domain › Protein regulator of cytokinesis 1 (PRC1) rod domain › Protein regulator of cytokinesis 1 (PRC1) rod domain › MAP65_ASE1 0.62 50.0 3.49e-01 87.3% 53.0%
5083301 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.62 47.0 4.58e-01 87.3% 75.7%
3602256 101.1.2.542 ↗ alpha arrays › HTH › HTH › winged helix domain › ATPase_2 0.61 46.0 4.41e-01 90.5% 70.7%
4199378 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 47.0 4.70e-01 87.3% 87.7%
4965689 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 45.0 4.61e-01 82.5% 96.7%
4407077 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 46.0 4.37e-01 85.7% 68.8%
4982784 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.61 48.0 4.95e-01 93.7% 96.7%
4160153 148.1.3.222 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › PF27254 0.60 45.0 4.38e-01 93.7% 74.3%
4562042 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.60 48.0 4.67e-01 88.9% 87.1%
3604096 2004.1.1.66 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase_2 0.60 50.0 4.71e-01 98.4% 78.8%
5062561 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.60 46.0 4.56e-01 87.3% 87.7%
3977984 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.60 42.0 4.31e-01 88.9% 81.7%
3731325 103.1.1.14 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › UBA_4 0.59 41.0 4.36e-01 85.7% 85.5%
None — 0.59 42.0 3.04e-01 77.8% 92.0%
4646832 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 44.0 3.16e-01 84.1% 91.0%
4934350 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.58 47.0 4.66e-01 92.1% 92.3%
4044382 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.58 45.0 4.40e-01 87.3% 82.9%
4528166 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.57 44.0 4.39e-01 92.1% 86.2%
4969408 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 46.0 3.46e-01 92.1% 37.0%
5028605 148.1.3.47 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › DNAX_ATPase_lid 0.57 45.0 4.60e-01 92.1% 98.3%
4474463 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.57 44.0 4.38e-01 92.1% 85.7%
3572298 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 45.0 2.98e-01 95.2% 59.4%
4429108 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.56 44.0 4.31e-01 92.1% 88.6%
4940271 7000.1.1.0 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS 0.52 45.0 4.06e-01 100.0% 77.8%
3965373 101.1.3.0 ↗ alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.51 42.0 4.06e-01 90.5% 78.6%