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NC_004735.1__NP_835655.1__Rm378p068__00068

Bact-Vir

NC_004735.1__NP_835655.1__Rm378p068__00068

Identity

Accession:
NC_004735 ↗
Kingdom:
phage

Quality

89.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhodothermus_phage_RM378

TaxID: 148943

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 2-64
PDB
Domain cluster: rep: NC_041929.1__YP_009601225.1__FDH46_gp100__00100__D31-78_167-189
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5c8qB02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.81 56.0 6.35e-01 77.8% 97.8%
2djpA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.77 57.0 5.32e-01 84.1% 63.6%
2mkxA00 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.72 52.0 5.64e-01 84.1% 94.1%
4b8vA02 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.70 53.0 5.06e-01 85.7% 69.9%
4b8vA03 3.10.350.10 Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain 0.70 49.0 5.36e-01 81.0% 95.9%
2i7aA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.67 55.0 4.24e-01 96.8% 81.5%
1f4qA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.65 54.0 4.13e-01 96.8% 83.2%
6dx5A00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.65 46.0 3.36e-01 74.6% 66.3%
3ucsA00 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.60 47.0 4.19e-01 90.5% 71.7%
2gu1A01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 50.0 4.59e-01 100.0% 92.0%
2vqeM01 1.10.8.50 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.58 43.0 4.22e-01 82.5% 88.7%
4rnyA02 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 48.0 3.81e-01 100.0% 65.3%
1r8eA02 1.10.1660.10 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.57 45.0 4.35e-01 92.1% 94.5%
4lhfA00 6.10.200.10 Special › Helix non-globular › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › Regulatory phage protein Cox 0.57 38.0 3.63e-01 71.4% 73.4%
2ek5B00 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 39.0 3.37e-01 76.2% 60.6%
3sluB01 3.10.450.350 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 46.0 4.20e-01 100.0% 93.4%
3hp7A01 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.54 40.0 4.02e-01 85.7% 90.8%
7x4eA01 1.10.1220.160 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › DNA sulphur modification protein DndE 0.53 38.0 3.23e-01 76.2% 99.1%
3ez2A01 1.10.1660.30 Mainly Alpha › Orthogonal Bundle › Multidrug-efflux Transporter Regulator; Chain: A; Domain 2 › 0.53 38.0 3.73e-01 81.0% 88.6%
4q4hA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 40.0 2.82e-01 96.8% 37.8%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004560 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.84 65.0 6.94e-01 84.1% 94.5%
3955076 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.82 57.0 6.52e-01 73.0% 100.0%
3166029 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.82 61.0 6.42e-01 81.0% 90.9%
4177991 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.81 62.0 6.56e-01 84.1% 92.7%
3587382 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.80 62.0 6.53e-01 84.1% 94.5%
4249176 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.80 58.0 5.93e-01 84.1% 80.0%
3979943 101.15.1.3 ↗ alpha arrays › HTH › LysM domain › LysM domain › Phage_tail_X 0.78 58.0 6.42e-01 79.4% 100.0%
3974521 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.78 57.0 5.82e-01 84.1% 80.0%
3452845 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.78 55.0 5.89e-01 82.5% 85.5%
4205026 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.78 55.0 5.50e-01 82.5% 72.3%
4995817 101.15.1.4 ↗ alpha arrays › HTH › LysM domain › LysM domain › Phage_gp53 0.77 65.0 6.26e-01 90.5% 85.7%
2809236 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.77 60.0 6.09e-01 84.1% 87.1%
3898121 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.74 54.0 5.78e-01 85.7% 89.1%
4007855 101.15.1.12 ↗ alpha arrays › HTH › LysM domain › LysM domain › PF30403 0.74 56.0 5.05e-01 82.5% 60.0%
2895417 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.73 55.0 5.24e-01 82.5% 67.5%
3969916 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.73 59.0 5.68e-01 88.9% 77.1%
3819870 101.15.1.6 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM2_CERK1_LYK3_4_5 0.73 57.0 4.40e-01 84.1% 40.7%
4069716 101.15.1.14 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM, LysM2_CERK1_LYK3_4_5 0.72 55.0 4.45e-01 84.1% 43.3%
3636417 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.72 53.0 5.69e-01 82.5% 94.3%
3611431 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.71 55.0 5.66e-01 84.1% 91.7%
3964920 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.71 49.0 5.08e-01 82.5% 79.3%
3964919 101.15.1.12 ↗ alpha arrays › HTH › LysM domain › LysM domain › PF30403 0.69 51.0 4.95e-01 82.5% 71.4%
2042916 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.68 50.0 5.29e-01 84.1% 92.6%
3946974 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.67 51.0 4.39e-01 84.1% 66.7%
4600619 221.1.2.5 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › S4 0.66 52.0 5.17e-01 88.9% 96.9%
3267280 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.66 47.0 5.01e-01 85.7% 96.0%
3963519 101.15.1.1 ↗ alpha arrays › HTH › LysM domain › LysM domain › LysM 0.66 53.0 5.35e-01 92.1% 89.2%
4057369 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.64 46.0 3.60e-01 77.8% 37.9%
4666406 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.64 44.0 4.44e-01 74.6% 76.9%
4994965 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.63 53.0 3.63e-01 96.8% 41.2%
4142235 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.63 45.0 3.97e-01 77.8% 51.0%
282935 3601.1.1.1 ↗ alpha complex topology › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Ad_Cy_reg 0.62 50.0 3.70e-01 95.2% 37.2%
4640142 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.62 45.0 4.61e-01 79.4% 86.7%
3961212 101.1.9.104 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Ad_Cy_reg 0.62 49.0 4.56e-01 92.1% 82.4%
4097210 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.62 44.0 4.65e-01 77.8% 92.7%
4271625 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.62 45.0 4.62e-01 79.4% 86.7%
4051544 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.62 44.0 4.50e-01 77.8% 88.3%
4553544 3601.1.1.1 ↗ alpha complex topology › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Class III adenylyl cyclases regulatory domain › Ad_Cy_reg 0.62 50.0 3.65e-01 95.2% 37.4%
3960089 102.2.1.0 ↗ alpha arrays › HhH/H2TH › H2TH › H2TH 0.61 48.0 4.47e-01 90.5% 77.6%
3954861 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.61 41.0 4.34e-01 71.4% 100.0%
4551162 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 44.0 4.32e-01 79.4% 75.7%
4329911 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 43.0 4.45e-01 77.8% 85.0%
3963419 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 45.0 4.41e-01 81.0% 82.4%
4315777 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 45.0 3.58e-01 82.5% 38.6%
4278221 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 43.0 4.29e-01 76.2% 76.9%
4039362 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.61 43.0 4.45e-01 77.8% 85.0%
4375269 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 44.0 4.37e-01 79.4% 80.0%
3585157 101.15.1.0 ↗ alpha arrays › HTH › LysM domain › LysM domain 0.60 47.0 4.65e-01 96.8% 80.0%
4352200 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 43.0 4.23e-01 79.4% 72.9%
4473430 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 43.0 4.11e-01 81.0% 68.8%
4614755 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 44.0 4.26e-01 82.5% 73.3%
4447894 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.60 42.0 4.41e-01 77.8% 96.4%
4886263 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.59 43.0 4.46e-01 79.4% 98.2%
3587879 101.1.9.36 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › MerR 0.59 47.0 4.02e-01 92.1% 61.8%
4271700 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.59 43.0 4.35e-01 82.5% 84.6%
4130472 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.58 43.0 4.29e-01 82.5% 86.2%
3514709 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.58 42.0 4.36e-01 79.4% 96.4%
3491972 108.1.1.28 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_6,EF-hand_7 0.58 40.0 3.85e-01 74.6% 80.0%
4221363 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.58 42.0 4.12e-01 81.0% 75.7%
4031038 221.1.2.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.57 45.0 4.64e-01 88.9% 96.7%
3386481 3953.1.1.0 ↗ a+b two layers › Csd3 N-terminal domain › Csd3 N-terminal domain › Csd3 N-terminal domain 0.57 47.0 4.20e-01 100.0% 84.0%
4322705 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.57 42.0 4.12e-01 82.5% 77.1%
4549467 101.1.9.8 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › IF2_N 0.56 41.0 4.22e-01 82.5% 90.0%
4033206 221.1.2.8 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › S4_2 0.56 45.0 4.44e-01 92.1% 95.7%
3459251 108.1.1.73 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5+EF-hand_7 0.56 40.0 3.78e-01 77.8% 77.5%
3480164 108.1.1.96 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_1, EF-hand_6, EF-hand_7 0.52 39.0 3.83e-01 90.5% 97.3%