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NC_041929.1__YP_009601251.1__FDH46_gp352__00126

Bact-Vir

NC_041929.1__YP_009601251.1__FDH46_gp352__00126

Identity

Accession:
NC_041929 ↗
Kingdom:
phage

Quality

72.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Emdodecavirus› Sinorhizobium_phage_phiM7

TaxID: 1647403

Cluster

Singleton — not in a non-trivial cluster

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 high residues 2-62
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF16805.12 best Trans_coact 39.0 8.20e-10 100.0% 75.3%
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4izzB02 1.10.10.1680 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › HetR, N-terminal DNA-binding domain 0.79 57.0 5.55e-01 85.2% 69.1%
2rn7A01 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 0.74 58.0 5.71e-01 85.2% 80.3%
2pjpA02 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 0.70 55.0 5.58e-01 93.4% 88.5%
3w6kC00 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 0.67 58.0 5.20e-01 98.4% 71.3%
5nl9A01 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 0.66 55.0 5.00e-01 95.1% 76.2%
4d7rA01 1.10.220.20 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › 0.65 54.0 4.90e-01 91.8% 74.4%
1j2zA02 1.20.1180.10 Mainly Alpha › Up-down Bundle › Udp N-acetylglucosamine O-acyltransferase; Domain 2 › Udp N-acetylglucosamine O-acyltransferase, C-terminal domain 0.64 50.0 4.86e-01 98.4% 77.6%
2kt0A01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.63 45.0 4.96e-01 75.4% 97.9%
1kplA00 1.10.3080.10 Mainly Alpha › Orthogonal Bundle › Clc chloride channel › Clc chloride channel 0.63 53.0 3.25e-01 98.4% 47.7%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.61 50.0 4.48e-01 96.7% 75.3%
1d3yA01 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 0.59 49.0 4.78e-01 100.0% 98.6%
2f07B00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 47.0 3.44e-01 96.7% 56.1%
1f05A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.58 49.0 3.12e-01 95.1% 18.9%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 39.0 3.63e-01 80.3% 56.6%
2mgqA00 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.58 43.0 4.21e-01 86.9% 75.0%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.57 42.0 4.30e-01 78.7% 82.8%
3ne5B04 6.10.140.730 Special › Helix non-globular › Helix Hairpins › 0.56 40.0 4.27e-01 77.0% 94.1%
2gmyD00 1.20.1290.10 Mainly Alpha › Up-down Bundle › AhpD-like › AhpD-like 0.56 43.0 3.36e-01 86.9% 73.8%
1bhaA00 1.10.287.170 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.56 41.0 4.04e-01 80.3% 71.6%
2llwA00 1.10.260.100 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › 0.55 42.0 4.07e-01 96.7% 76.1%
3eslA01 1.20.58.2070 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 47.0 4.41e-01 96.7% 82.7%
7t2rC01 1.10.10.1590 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › NADH-quinone oxidoreductase subunit E 0.55 42.0 4.34e-01 88.5% 94.7%
4gvpA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 41.0 2.94e-01 85.2% 25.2%
4dmvA01 1.20.58.1190 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 46.0 4.23e-01 100.0% 80.0%
2kjrA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 43.0 4.00e-01 90.2% 71.2%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.53 41.0 3.69e-01 83.6% 80.2%
1f16A00 1.10.437.10 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like 0.53 40.0 3.02e-01 91.8% 37.0%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4189523 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.84 59.0 6.68e-01 73.8% 100.0%
5052346 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.79 61.0 6.20e-01 83.6% 85.0%
3277968 101.1.1.217 ↗ alpha arrays › HTH › HTH › Three-helical HTH › RsmI_C 0.78 56.0 5.86e-01 75.4% 85.5%
3391907 3697.1.1.1 ↗ alpha bundles › NQO2 helical bundle domain › NQO2 helical bundle domain › NQO2 helical bundle domain › 2Fe-2S_thioredx 0.75 57.0 5.02e-01 83.6% 55.6%
3293154 101.1.2.472 ↗ alpha arrays › HTH › HTH › winged helix domain › A_thal_3526 0.75 62.0 6.29e-01 93.4% 100.0%
166741 101.1.1.13 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_1 0.74 58.0 4.81e-01 85.2% 49.1%
4995688 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.74 60.0 6.23e-01 95.1% 100.0%
3445817 101.1.1.269 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7769 0.72 50.0 5.63e-01 75.4% 100.0%
3696840 101.1.2.384 ↗ alpha arrays › HTH › HTH › winged helix domain › Myb_DNA-bind_8 0.71 53.0 5.49e-01 80.3% 100.0%
3424245 101.1.1.269 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7769 0.71 53.0 5.43e-01 82.0% 86.7%
4955389 101.1.1.542 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF790 0.71 51.0 5.35e-01 77.0% 94.5%
3283752 101.1.1.13 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_Tnp_1 0.70 58.0 5.04e-01 93.4% 61.1%
4938040 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 58.0 4.45e-01 100.0% 44.7%
3366636 101.1.1.269 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7769 0.68 51.0 5.04e-01 82.0% 76.9%
3082022 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.65 51.0 4.40e-01 88.5% 92.2%
2887751 101.1.1.60 ↗ alpha arrays › HTH › HTH › Three-helical HTH › HTH_23 0.63 48.0 4.70e-01 85.2% 76.1%
3279756 101.1.2.25 ↗ alpha arrays › HTH › HTH › winged helix domain › FUR 0.63 53.0 4.21e-01 100.0% 47.1%
5000777 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.59 43.0 3.78e-01 78.7% 54.3%
3979215 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.58 43.0 4.51e-01 80.3% 90.9%
3583807 592.1.1.0 ↗ alpha arrays › PWI domain-like › PWI domain › PWI domain 0.56 44.0 4.23e-01 100.0% 77.3%
3686783 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 48.0 4.10e-01 100.0% 86.7%
3429728 606.1.1.0 ↗ alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.54 41.0 3.54e-01 85.2% 61.9%
3928383 5001.1.1.44 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srv 0.52 42.0 2.83e-01 86.9% 57.3%
5079633 7094.1.1.4 ↗ alpha bundles › Paddle domain of mitochondrial dynamin › Paddle domain of mitochondrial dynamin › Paddle domain of mitochondrial dynamin › PF27273 0.52 40.0 3.61e-01 83.6% 64.7%
2844242 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.51 33.0 2.77e-01 73.8% 37.0%