←Back to structures

MW006477.1__QPI14758.1__GECvBMG_gp214c__00214

Bact-Vir

MW006477.1__QPI14758.1__GECvBMG_gp214c__00214

Identity

Accession:
MW006477 ↗
Kingdom:
phage

Quality

71.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Seunavirus› Salmonella_phage_GEC_vB_MG

TaxID: 2777376

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 27-78
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1mhxA00 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.65 47.0 4.41e-01 82.7% 61.5%
2bs2B01 3.10.20.30 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain 0.61 46.0 3.70e-01 82.7% 45.3%
3h27A00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.60 43.0 2.58e-01 78.8% 76.7%
2hj1A00 3.10.20.280 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RnfH-like 0.59 39.0 3.53e-01 73.1% 46.8%
3vsjA00 3.40.830.10 Alpha Beta › 3-Layer(aba) Sandwich › Protocatechuate 4,5-dioxygenase; Chain B › LigB-like 0.58 39.0 2.44e-01 90.4% 13.3%
3h8lA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 41.0 2.81e-01 75.0% 88.3%
1wjnA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.57 42.0 3.47e-01 82.7% 43.3%
2bolA03 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 41.0 3.46e-01 78.8% 84.9%
7kseA02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 41.0 3.15e-01 84.6% 65.1%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.56 41.0 3.21e-01 78.8% 35.0%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.55 40.0 3.46e-01 76.9% 86.3%
5f7pA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 37.0 2.90e-01 73.1% 30.1%
1vlpA00 3.20.140.10 Alpha Beta › Alpha-Beta Barrel › nicotinate phosphoribosyltransferase › nicotinate phosphoribosyltransferase 0.55 40.0 2.35e-01 78.8% 82.5%
3duwA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 41.0 2.77e-01 82.7% 71.7%
2kinA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.55 41.0 2.75e-01 86.5% 43.3%
2f96A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 44.0 3.06e-01 90.4% 43.8%
1x5xA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 34.0 2.75e-01 78.8% 29.4%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 40.0 2.81e-01 80.8% 49.1%
8jx6A02 2.30.30.780 Mainly Beta › Roll › SH3 type barrels. › 0.52 40.0 3.21e-01 80.8% 84.5%
3gudA00 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 39.0 3.09e-01 84.6% 71.4%
2wnyA00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.52 35.0 2.78e-01 73.1% 37.2%
2rs7A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.48e-01 86.5% 58.1%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 44.0 3.12e-01 100.0% 86.0%
3kenA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.51 43.0 2.65e-01 96.2% 95.8%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.51 40.0 2.62e-01 86.5% 37.7%
1q48A00 3.90.1010.10 Alpha Beta › Alpha-Beta Complex › Sufe protein. Chain: A › 0.50 43.0 3.22e-01 96.2% 68.7%
1e3hA01 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.50 45.0 2.87e-01 100.0% 33.5%
ECOD (45)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3387142 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 41.0 2.78e-01 76.9% 18.9%
3956097 3281.1.1.1 ↗ alpha complex topology › Sodium/proton antiporter subunits-like › Sodium/proton antiporter subunits-like › NADH-quinone oxidoreductase subunit L (NuoL)-related › Proton_antipo_M 0.61 45.0 2.53e-01 78.8% 38.7%
3785390 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.61 44.0 3.45e-01 80.8% 85.6%
3258528 207.2.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.60 42.0 2.44e-01 75.0% 31.7%
3713741 2007.2.3.2 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › DSPc 0.59 43.0 3.00e-01 78.8% 58.3%
3699638 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 43.0 2.40e-01 78.8% 22.9%
3302022 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.58 42.0 3.52e-01 80.8% 83.0%
3598340 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 45.0 2.73e-01 86.5% 32.6%
3846231 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.58 46.0 2.80e-01 96.2% 94.0%
3672395 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.58 42.0 2.64e-01 76.9% 92.4%
4889773 3114.1.1.1 ↗ beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain › MucBP 0.58 38.0 3.34e-01 76.9% 43.8%
3217822 221.1.1.51 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › USP7_C2 0.57 45.0 3.60e-01 100.0% 40.0%
3500612 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.57 40.0 2.42e-01 73.1% 69.7%
3636447 2484.1.1.39 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Fumble 0.57 47.0 2.85e-01 100.0% 32.8%
3738599 221.1.1.51 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › USP7_C2 0.56 45.0 3.83e-01 100.0% 51.6%
5079397 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.56 42.0 3.63e-01 82.7% 63.5%
3396683 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.56 42.0 3.72e-01 82.7% 54.4%
3848951 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.56 37.0 3.35e-01 78.8% 48.0%
5017082 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.56 44.0 2.66e-01 86.5% 56.1%
3226927 5001.1.1.41 ↗ 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_Srw 0.55 39.0 2.47e-01 76.9% 37.1%
3343216 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.54 45.0 3.43e-01 92.3% 40.8%
3810819 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.53 41.0 2.40e-01 82.7% 28.7%
3788876 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.53 40.0 2.35e-01 80.8% 35.6%
3672275 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.53 44.0 2.69e-01 96.2% 85.4%
3464534 101.1.2.641 ↗ alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1, DUF7647 0.53 46.0 2.64e-01 100.0% 26.5%
4020622 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 45.0 2.74e-01 96.2% 89.7%
3648651 221.1.1.111 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Ubiq_DUF_assoc 0.53 41.0 3.30e-01 98.1% 39.2%
5070158 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.53 40.0 2.56e-01 100.0% 14.4%
3599949 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 37.0 3.29e-01 92.3% 46.3%
4933788 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.52 37.0 2.54e-01 76.9% 58.6%
3439386 2004.1.1.26 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.52 38.0 2.37e-01 82.7% 18.1%
3871585 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.52 41.0 2.49e-01 90.4% 63.5%
3605061 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.52 40.0 2.41e-01 84.6% 17.2%
3316686 2484.1.1.157 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF4371 0.52 36.0 2.50e-01 80.8% 20.0%
3191004 5.1.4.223 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd 0.51 45.0 2.48e-01 100.0% 10.6%
3598574 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.51 44.0 2.61e-01 96.2% 93.4%
5073666 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 37.0 2.42e-01 98.1% 13.7%
3607858 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 42.0 3.36e-01 92.3% 50.5%
4944463 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 36.0 2.92e-01 80.8% 36.7%
3355880 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.51 41.0 2.56e-01 96.2% 88.9%
3650249 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.50 40.0 2.74e-01 100.0% 72.2%
3741882 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.50 43.0 2.64e-01 96.2% 94.7%
3599377 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.50 43.0 2.60e-01 96.2% 92.6%
3258455 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.50 42.0 3.35e-01 94.2% 45.0%
3376457 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.50 35.0 3.04e-01 82.7% 42.0%
D2 medium residues 79-160
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7egfc01 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.60 49.0 4.86e-01 87.8% 95.3%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5081693 304.160.1.1 ↗ a+b two layers › Alpha-beta plaits › Gas vesicle protein GvpF › Gas vesicle protein GvpF › GvpL_GvpF 0.77 57.0 4.73e-01 85.4% 46.0%
4501780 310.2.1.5 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › DUF842 0.70 50.0 4.34e-01 75.6% 80.8%