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MN988538.1__QIG74567.1__EVC10_059__00059

Bact-Vir

MN988538.1__QIG74567.1__EVC10_059__00059

Identity

Accession:
MN988538 ↗
Kingdom:
phage

Quality

82.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_RHph_Y25

TaxID: 2509588

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 medium residues 8-72
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2auwB02 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.84 64.0 6.30e-01 98.5% 75.7%
6rnzA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.81 62.0 6.19e-01 100.0% 81.8%
2ictA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.79 62.0 5.82e-01 98.5% 69.1%
3bd1A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.78 57.0 5.74e-01 98.5% 78.5%
2xcjA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.77 61.0 5.65e-01 100.0% 67.9%
2o38A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.76 61.0 6.12e-01 98.5% 87.7%
3kxaA02 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.76 55.0 5.55e-01 96.9% 77.3%
1r69A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.75 58.0 5.89e-01 96.9% 85.7%
2a6cA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.74 61.0 5.82e-01 100.0% 77.6%
3op9A01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.73 57.0 5.71e-01 100.0% 83.8%
2bnmA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.72 59.0 5.73e-01 100.0% 81.1%
2ofyA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.71 56.0 5.57e-01 100.0% 82.9%
3pxpA01 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.70 62.0 5.53e-01 100.0% 75.3%
3f51C00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.69 58.0 5.27e-01 100.0% 68.9%
2l1pA00 1.10.260.70 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › SATB, CULT domain 0.67 55.0 5.17e-01 98.5% 73.5%
4yg1A00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.67 52.0 5.09e-01 100.0% 80.6%
3fymA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.66 54.0 5.07e-01 96.9% 74.4%
2eucA00 1.10.8.570 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Hypothetical protein YfmB 0.66 57.0 4.89e-01 100.0% 93.5%
2wusS00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.65 54.0 5.10e-01 100.0% 78.0%
3b7hA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.64 53.0 5.13e-01 100.0% 84.2%
3eyyA01 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 0.58 39.0 3.72e-01 70.8% 59.8%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.58 43.0 4.07e-01 80.0% 75.6%
2b8iA00 1.20.1280.100 Mainly Alpha › Up-down Bundle › Monooxygenase › Pas factor, saposin domain 0.54 38.0 3.64e-01 75.4% 93.5%
6vmsR00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.52 43.0 2.94e-01 98.5% 90.3%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5028710 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.78 67.0 6.44e-01 100.0% 81.3%
4425239 101.45.1.0 ↗ alpha arrays › HTH › DNA polymerase II large subunit DP2 helical domain › DNA polymerase II large subunit DP2 helical domain 0.76 68.0 5.79e-01 100.0% 68.6%
4172637 101.45.1.3 ↗ alpha arrays › HTH › DNA polymerase II large subunit DP2 helical domain › DNA polymerase II large subunit DP2 helical domain › PolC_DP2_central 0.76 68.0 6.08e-01 100.0% 80.0%
5071803 101.45.1.0 ↗ alpha arrays › HTH › DNA polymerase II large subunit DP2 helical domain › DNA polymerase II large subunit DP2 helical domain 0.76 63.0 5.83e-01 100.0% 71.8%
4521568 101.45.1.0 ↗ alpha arrays › HTH › DNA polymerase II large subunit DP2 helical domain › DNA polymerase II large subunit DP2 helical domain 0.76 68.0 5.95e-01 100.0% 81.1%
1923620 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.73 64.0 5.92e-01 100.0% 76.8%
4678741 101.1.4.3 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 0.72 59.0 5.71e-01 100.0% 80.0%
3965598 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.71 61.0 5.97e-01 100.0% 88.6%
4031703 101.1.4.17 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_26 0.70 57.0 5.65e-01 100.0% 85.7%
5047963 101.45.1.0 ↗ alpha arrays › HTH › DNA polymerase II large subunit DP2 helical domain › DNA polymerase II large subunit DP2 helical domain 0.67 55.0 5.22e-01 100.0% 76.2%
3258851 101.1.1.96 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Neugrin 0.65 42.0 4.07e-01 72.3% 57.3%
3954413 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.64 54.0 4.91e-01 96.9% 81.1%
3284468 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.63 54.0 4.93e-01 98.5% 81.8%
4963971 601.7.1.34 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › DUF4129 0.62 52.0 4.77e-01 98.5% 85.6%
4994814 3110.1.1.0 ↗ a/b three-layered sandwiches › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain › STT3/PglB/AglB core domain 0.61 53.0 3.52e-01 100.0% 74.2%
3366636 101.1.1.269 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DUF7769 0.58 43.0 4.31e-01 78.5% 87.7%
5077087 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 50.0 4.43e-01 100.0% 88.4%
5021067 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 44.0 3.87e-01 98.5% 90.5%
4955971 5051.1.1.10 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease_2 0.52 42.0 2.59e-01 98.5% 87.6%
3587870 5060.2.1.1 ↗ alpha bundles › V-type ATP synthase subunit C › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › Toxin coregulated pilus biosynthesis protein E cytoplasmic domain › T2SSF 0.50 38.0 3.34e-01 87.7% 75.5%
D2 medium residues 75-122
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2b5dX01 3.20.110.10 Alpha Beta › Alpha-Beta Barrel › 7-stranded beta/alpha barrel › Glycoside hydrolase 38, N terminal domain 0.76 60.0 3.46e-01 85.4% 21.5%
7ckaA01 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.67 54.0 3.67e-01 97.9% 22.8%