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NC_042054.1__YP_009616770.1__FDI83_gp120__00084

Bact-Vir

NC_042054.1__YP_009616770.1__FDI83_gp120__00084

Identity

Accession:
NC_042054 ↗
Kingdom:
phage

Quality

93.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vandenendeviridae› Flaumdravirus› Pseudomonas_phage_vB_PsyM_KIL4

TaxID: 1777069

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 4-45
PDB
Domain cluster: rep: IMGVR_UViG_3300000151_000033-3300000151-SI53jan11_200mDRAFT_10009858__D2-32
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01541.31 best GIY-YIG 24.2 4.70e-05 97.6% 42.3%
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3weeB03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.78 47.0 3.35e-01 97.6% 21.7%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.72 51.0 4.35e-01 73.8% 71.2%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.72 60.0 3.79e-01 100.0% 38.5%
3g2bA00 1.10.10.1150 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) 0.71 50.0 3.95e-01 76.2% 43.3%
2pe4A00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.69 53.0 3.08e-01 85.7% 11.0%
3rm5B01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.69 60.0 3.57e-01 97.6% 56.6%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.68 49.0 4.08e-01 83.3% 45.8%
6eudA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 47.0 3.11e-01 71.4% 17.6%
4arvA02 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.66 54.0 3.82e-01 90.5% 52.4%
2ebnA00 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.66 47.0 2.86e-01 76.2% 43.5%
2p92A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.65 52.0 4.03e-01 88.1% 75.8%
7jgsG02 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 0.65 44.0 3.35e-01 81.0% 30.6%
2y8yA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.65 47.0 3.46e-01 78.6% 73.9%
1pc6A00 1.10.3790.10 Mainly Alpha › Orthogonal Bundle › NinB fold › NinB 0.63 50.0 3.42e-01 85.7% 53.9%
4hn3A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.62 45.0 2.73e-01 81.0% 14.2%
5ucoA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.61 51.0 3.50e-01 95.2% 35.3%
5ck3C00 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.60 50.0 3.76e-01 97.6% 38.1%
1oi2A02 3.30.1180.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › Dihydroxyacetone kinase; domain 2 0.59 46.0 3.30e-01 100.0% 38.9%
1ciaA00 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.59 48.0 3.03e-01 90.5% 22.1%
2yfsA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.59 45.0 2.59e-01 85.7% 62.2%
3pieA02 3.30.1370.250 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.59 49.0 3.75e-01 95.2% 74.0%
1cfyA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 39.0 2.88e-01 71.4% 54.1%
6aqgD02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.58 50.0 2.96e-01 97.6% 18.4%
2kt2A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 41.0 3.68e-01 81.0% 89.9%
4uy8X00 2.30.170.40 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L28/L24 0.57 40.0 3.42e-01 85.7% 42.9%
1z1bA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.56 43.0 4.05e-01 95.2% 71.9%
3wbiA04 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 38.0 2.61e-01 81.0% 20.7%
3dsbA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 43.0 3.25e-01 81.0% 38.6%
2rsmA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 45.0 3.45e-01 100.0% 38.3%
2lpuA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.55 40.0 2.99e-01 92.9% 98.6%
7cceA01 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.55 42.0 2.89e-01 83.3% 35.8%
3lxqA01 3.30.1120.80 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.55 41.0 3.30e-01 90.5% 88.9%
1neiA00 3.30.160.220 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › YoaG 0.55 44.0 4.02e-01 95.2% 88.3%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.54 40.0 3.37e-01 90.5% 78.7%
4lvnP00 3.30.70.2380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 38.0 3.30e-01 85.7% 85.2%
3rhtA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.53 42.0 2.61e-01 88.1% 92.1%
5r0dB01 2.60.34.20 Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › 0.52 39.0 2.69e-01 81.0% 23.8%
4rayA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.52 43.0 4.02e-01 88.1% 96.0%
7uqyB01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.52 40.0 2.56e-01 83.3% 56.5%
2bm0A03 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.52 40.0 3.78e-01 88.1% 70.6%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 38.0 2.81e-01 95.2% 96.8%
5sviB00 3.30.40.100 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.51 35.0 3.32e-01 78.6% 58.5%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.51 37.0 2.90e-01 90.5% 90.8%
3bvxA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.51 38.0 2.70e-01 85.7% 48.3%
3p2aA01 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.50 34.0 3.55e-01 85.7% 86.1%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4861745 305.1.1.0 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.83 59.0 5.20e-01 76.2% 51.6%
5024386 2484.4.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Nitrogenase accessory factor-like › Nitrogenase accessory factor-like 0.78 53.0 3.99e-01 71.4% 39.0%
4931277 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.71 55.0 3.71e-01 85.7% 51.6%
4999237 301.2.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › PurM N-terminal domain-like › PurM N-terminal domain-like 0.69 51.0 3.20e-01 78.6% 35.6%
3939245 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.69 54.0 3.14e-01 85.7% 67.3%
3195256 327.16.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system 0.69 58.0 4.72e-01 100.0% 83.5%
3463429 109.4.1.1335 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, E_motif 0.68 46.0 2.62e-01 71.4% 6.6%
3604748 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 55.0 3.46e-01 90.5% 56.7%
3641506 3957.1.1.0 ↗ a+b two layers › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 0.67 49.0 4.00e-01 83.3% 58.8%
5018200 2004.1.1.220 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SWI2_SNF2 0.66 49.0 2.79e-01 81.0% 10.5%
3240369 5001.1.1.66 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Srg 0.65 48.0 2.98e-01 85.7% 60.0%
3899209 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.65 55.0 3.47e-01 90.5% 44.6%
4953504 7516.1.1.11 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › CTP_transf_3 0.65 50.0 3.18e-01 85.7% 40.9%
3499344 3914.1.1.2 ↗ alpha bundles › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › Anoctamin,Anoct_dimer 0.64 58.0 3.12e-01 100.0% 86.2%
3685955 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.64 51.0 4.21e-01 95.2% 84.7%
3709956 221.1.1.2 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin 0.64 47.0 4.01e-01 83.3% 53.4%
5010744 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.63 47.0 4.25e-01 88.1% 89.2%
3617650 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.63 54.0 3.32e-01 95.2% 16.7%
4046039 318.1.1.1 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal_L6 0.63 56.0 4.36e-01 97.6% 54.1%
3933447 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.62 55.0 4.04e-01 97.6% 86.7%
3203770 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.62 46.0 4.27e-01 83.3% 70.9%
3932726 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.62 57.0 3.44e-01 100.0% 40.0%
4982318 3501.1.1.1 ↗ a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.62 54.0 4.80e-01 97.6% 68.3%
2106272 318.1.1.0 ↗ a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 0.61 53.0 4.17e-01 100.0% 51.1%
4890984 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.61 41.0 3.25e-01 73.8% 45.1%
5043001 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.61 45.0 3.31e-01 78.6% 32.4%
2141918 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.61 48.0 3.14e-01 88.1% 35.5%
3235875 376.1.4.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Ariadne-1 protein homolog › IBR 0.60 51.0 4.41e-01 100.0% 64.3%
3927286 4099.1.1.0 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.59 53.0 4.31e-01 100.0% 98.7%
3253565 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.58 42.0 4.49e-01 88.1% 97.1%
3233262 706.1.1.0 ↗ beta complex topology › Head domain of nucleotide exchange factor GrpE › Head domain of nucleotide exchange factor GrpE › Head domain of nucleotide exchange factor GrpE 0.58 40.0 4.19e-01 78.6% 94.3%
3813458 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.58 43.0 4.18e-01 85.7% 78.0%
3970701 560.1.1.0 ↗ few secondary structure elements › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain › H-NS histone-like proteins, C-terminal domain 0.58 39.0 4.03e-01 88.1% 75.0%
3212280 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 45.0 2.62e-01 88.1% 16.3%
3285877 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 53.0 3.25e-01 100.0% 26.7%
5045741 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 38.0 3.42e-01 71.4% 76.9%
4345843 295.1.1.12 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › UPF0231 0.56 46.0 3.31e-01 90.5% 46.8%
4342292 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.54 42.0 3.88e-01 85.7% 65.5%
4242930 4232.1.1.1 ↗ few secondary structure elements › Ribosomal protein bL28-related › Ribosomal protein bL28-related › Ribosomal protein L28 › Ribosomal_L28 0.54 41.0 3.28e-01 85.7% 40.0%
3325733 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.54 36.0 3.47e-01 71.4% 60.0%
5059205 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 37.0 3.83e-01 81.0% 87.5%
3706365 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.53 38.0 3.68e-01 81.0% 84.0%
3946510 803.1.1.0 ↗ a+b duplicates or obligate multimers › Hypothetical protein YoaG › Hypothetical protein YoaG › Hypothetical protein YoaG 0.53 43.0 4.21e-01 90.5% 97.8%
3596419 375.1.1.77 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF4379 0.53 40.0 4.05e-01 95.2% 95.0%
3243005 10.32.1.227 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Glycoprotein 0.52 40.0 2.91e-01 90.5% 40.7%
3973804 4019.1.1.3 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.52 43.0 3.23e-01 95.2% 60.0%
3307706 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.51 45.0 3.08e-01 100.0% 79.3%