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NC_070888.1__YP_010662430.1__PP939_gp022__00022

Bact-Vir

NC_070888.1__YP_010662430.1__PP939_gp022__00022

Identity

Accession:
NC_070888 ↗
Kingdom:
phage

Quality

89.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Innesvirus› Rhizobium_phage_RL38J1

TaxID: 2663232

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 3-69
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7nz1G01 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.63 37.0 3.27e-01 98.5% 39.6%
3sqnB01 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 0.62 36.0 3.76e-01 94.0% 60.7%
3wgtA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.61 40.0 2.91e-01 100.0% 22.7%
4ga6A01 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.60 35.0 3.30e-01 98.5% 45.8%
4hw0C00 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 0.60 37.0 3.30e-01 98.5% 44.1%
5trdA01 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 36.0 3.41e-01 100.0% 50.0%
3m8eA00 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 35.0 3.05e-01 98.5% 40.6%
2z99A01 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 39.0 3.65e-01 98.5% 56.3%
2oqgB00 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 0.56 34.0 2.89e-01 95.5% 37.0%
2rdpA00 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 0.56 35.0 2.78e-01 98.5% 30.0%
2qvoA00 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 0.56 36.0 3.37e-01 98.5% 51.7%
4n06A02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.55 40.0 2.77e-01 79.1% 53.4%
1c9rA04 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.55 47.0 4.12e-01 100.0% 86.9%
6uvuA01 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 0.55 33.0 2.93e-01 97.0% 38.5%
1stzA01 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 0.55 37.0 3.42e-01 98.5% 55.3%
1u5tA02 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 0.55 36.0 3.53e-01 100.0% 61.3%
7xinA03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 40.0 3.45e-01 79.1% 50.5%
4uhiA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 43.0 2.65e-01 86.6% 60.3%
4hudA01 3.30.2000.40 Alpha Beta › 2-Layer Sandwich › STM4215-like › Myoviridae tail sheath stabiliser 0.54 47.0 3.33e-01 98.5% 74.8%
1r94A00 2.60.300.12 Mainly Beta › Sandwich › Hypothetical Protein Aq_1857; Chain: A; › HesB-like domain 0.54 35.0 3.10e-01 100.0% 45.4%
1sd4A01 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 0.54 35.0 3.65e-01 98.5% 70.3%
2dk8A01 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 0.54 35.0 3.54e-01 100.0% 66.2%
2j0nB00 1.20.1710.10 Mainly Alpha › Up-down Bundle › IpaD-like › IpaD-like 0.54 38.0 2.79e-01 74.6% 52.4%
3jamK00 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 0.53 35.0 3.12e-01 97.0% 47.9%
2hoeA01 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 0.52 33.0 3.55e-01 98.5% 74.1%
3r31A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.52 41.0 2.83e-01 88.1% 83.8%
5iceA01 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 0.52 34.0 3.01e-01 98.5% 43.6%
4jtmA00 3.55.50.30 Alpha Beta › 3-Layer(bab) Sandwich › Phage tail protein beta-alpha-beta fold › 0.51 40.0 3.75e-01 83.6% 93.8%
1u5tB02 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 0.51 35.0 3.56e-01 98.5% 71.0%
1tbxB00 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 0.51 34.0 3.13e-01 97.0% 51.1%
3c0wA02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.51 34.0 2.93e-01 77.6% 44.7%
1u6gC00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.50 40.0 2.19e-01 88.1% 6.5%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4937327 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 34.0 3.76e-01 91.0% 61.8%
4954889 101.1.2.55 ↗ alpha arrays › HTH › HTH › winged helix domain › SMC_ScpB 0.64 39.0 4.00e-01 94.0% 63.1%
3228169 2484.1.1.233 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1280 0.62 53.0 3.48e-01 100.0% 52.7%
4299573 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.62 36.0 3.16e-01 100.0% 37.1%
3237008 2484.1.1.233 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1280 0.60 53.0 3.84e-01 100.0% 44.6%
5032304 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.58 38.0 2.63e-01 89.6% 19.6%
3926339 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 49.0 3.59e-01 100.0% 47.3%
5082299 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 33.0 2.98e-01 94.0% 40.0%
4614032 101.1.2.92 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_11 0.57 39.0 3.74e-01 98.5% 60.0%
4027467 306.3.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like 0.55 47.0 4.15e-01 100.0% 81.0%
4113552 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 37.0 3.58e-01 98.5% 60.0%
4979765 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.55 36.0 3.40e-01 97.0% 54.2%
3038115 3016.1.1.0 ↗ a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.55 40.0 3.29e-01 79.1% 43.7%
4659871 3001.1.1.1 ↗ alpha arrays › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › THDPS_N_2 0.54 37.0 3.30e-01 70.1% 55.8%
4625029 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.54 36.0 3.17e-01 98.5% 44.8%
1108085 109.4.1.58 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Not1 0.54 43.0 2.60e-01 91.0% 24.4%
3340171 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 47.0 4.51e-01 100.0% 92.5%
5041526 101.1.2.54 ↗ alpha arrays › HTH › HTH › winged helix domain › Penicillinase_R 0.54 31.0 3.25e-01 91.0% 61.7%
4631918 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 36.0 3.51e-01 98.5% 62.7%
5072831 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 37.0 3.82e-01 97.0% 76.2%
4990274 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 36.0 3.15e-01 98.5% 44.8%
4991081 2003.1.9.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › CoA_transf_3 0.53 39.0 2.51e-01 82.1% 25.3%
3804380 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 42.0 2.43e-01 91.0% 21.5%
5012309 101.1.2.903 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_29 0.52 28.0 2.76e-01 98.5% 44.3%
2697 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 36.0 3.48e-01 97.0% 63.6%
4955611 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.51 35.0 3.10e-01 100.0% 45.2%
5003975 101.1.2.944 ↗ alpha arrays › HTH › HTH › winged helix domain › PF26486 0.51 34.0 3.51e-01 100.0% 72.3%
5071694 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 36.0 3.08e-01 74.6% 56.4%
3821340 101.1.2.88 ↗ alpha arrays › HTH › HTH › winged helix domain › Dimerisation 0.51 36.0 2.88e-01 100.0% 35.2%
5004081 3239.1.1.1 ↗ alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.51 39.0 2.62e-01 89.6% 95.9%
3982462 4132.1.1.1 ↗ alpha bundles › IpaD-like › IpaD-like › IpaD-like › T3SS_TC 0.50 44.0 2.87e-01 98.5% 65.7%
5024398 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.50 35.0 2.84e-01 98.5% 37.7%
4257661 3001.1.1.1 ↗ alpha arrays › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › THDPS_N_2 0.50 37.0 3.43e-01 80.6% 70.0%
1070142 3070.1.1.11 ↗ a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins › type_II_gspD_N0 0.50 39.0 3.69e-01 83.6% 92.6%
3941213 101.1.2.506 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_NWD1 0.50 37.0 3.27e-01 79.1% 67.0%
4599024 3001.1.1.1 ↗ alpha arrays › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › Tetrahydrodipicolinate-N-succinlytransferase, N-terminal 3-helical domain › THDPS_N_2 0.50 37.0 3.43e-01 79.1% 72.9%