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KJ746502.1__AID18370.1__PPF1_57__00057

Bact-Vir

KJ746502.1__AID18370.1__PPF1_57__00057

Identity

Accession:
KJ746502 ↗
Kingdom:
phage

Quality

72.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rhizobium_phage_vB_RleM_PPF1

TaxID: 1498228

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 10-62
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lltA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.63 35.0 2.25e-01 88.7% 11.3%
6eudA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 50.0 3.57e-01 90.6% 61.2%
2y9wC00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.61 46.0 3.46e-01 83.0% 66.2%
1ti2B01 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 35.0 2.63e-01 71.7% 23.3%
3j7aV00 2.40.50.1000 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.60 44.0 3.31e-01 83.0% 49.3%
3h6qA00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.58 43.0 3.15e-01 84.9% 73.2%
6zwwC01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 45.0 3.26e-01 90.6% 59.0%
1xjvA02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 43.0 3.22e-01 86.8% 80.5%
2qrdB01 2.20.25.290 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.56 38.0 4.11e-01 84.9% 100.0%
3o2zF00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 41.0 3.76e-01 83.0% 92.2%
2giaB00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.56 44.0 3.38e-01 98.1% 34.2%
6scxC01 3.90.79.20 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › 0.55 37.0 2.73e-01 71.7% 28.5%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.55 46.0 3.17e-01 100.0% 69.9%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.55 39.0 3.30e-01 77.4% 60.8%
4cbgD02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 43.0 3.21e-01 94.3% 49.7%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 40.0 3.34e-01 83.0% 53.4%
4r0mA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.54 43.0 3.52e-01 92.5% 82.4%
5mu3B00 3.40.50.12050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 38.0 2.76e-01 73.6% 33.1%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.54 38.0 2.86e-01 77.4% 75.0%
1vdhA01 3.30.70.1030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Apc35880; domain 1 0.54 37.0 2.96e-01 73.6% 33.9%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 41.0 3.36e-01 88.7% 50.9%
1jcfA03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.53 40.0 3.63e-01 84.9% 75.0%
2qlvB02 2.20.25.290 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.53 34.0 3.67e-01 77.4% 92.1%
2xzmJ00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.53 36.0 2.98e-01 73.6% 61.9%
2giaA00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.53 43.0 3.20e-01 98.1% 33.1%
2v8qB00 6.20.250.60 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.52 38.0 3.56e-01 84.9% 72.6%
3ub1A01 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 38.0 2.93e-01 83.0% 46.3%
4gniA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.51 40.0 3.65e-01 98.1% 64.0%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.51 39.0 2.69e-01 92.5% 89.5%
1odfA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 40.0 2.70e-01 98.1% 24.3%
6xw5A01 2.40.510.10 Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses 0.51 38.0 2.77e-01 84.9% 88.4%
4kt5C00 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 33.0 2.80e-01 71.7% 38.6%
6rzqA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.51 40.0 3.62e-01 98.1% 64.7%
1fi8C00 2.60.40.550 Mainly Beta › Sandwich › Immunoglobulin-like › Ecotin 0.50 38.0 3.48e-01 100.0% 60.3%
3ue2A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.50 35.0 3.15e-01 79.2% 55.7%
4jneA03 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.50 39.0 3.50e-01 98.1% 65.9%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4025162 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.66 46.0 3.80e-01 73.6% 71.6%
3837975 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.62 46.0 3.37e-01 83.0% 31.5%
4120506 243.11.1.4 ↗ a+b two layers › Cystatin-like › NP_346341.1 protein › NP_346341.1 protein › PF29632 0.61 51.0 4.58e-01 100.0% 86.3%
3990877 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.61 48.0 3.78e-01 86.8% 47.0%
3405436 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 47.0 3.69e-01 84.9% 55.7%
5018480 1104.1.1.0 ↗ a+b complex topology › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain › Helicase Cch N-terminal domain 0.60 45.0 3.21e-01 83.0% 60.0%
3896408 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.59 40.0 2.60e-01 71.7% 36.4%
4981961 101.1.2.819 ↗ alpha arrays › HTH › HTH › winged helix domain › PF27231 0.59 40.0 2.96e-01 71.7% 80.6%
3873279 5001.1.1.5 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_3 0.59 40.0 2.56e-01 71.7% 35.7%
3795719 810.1.1.2 ↗ a+b two layers › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) › GGACT 0.59 43.0 3.15e-01 81.1% 29.7%
3165049 3218.1.1.0 ↗ a+b duplicates or obligate multimers › small terminase oligomerization domain › small terminase oligomerization domain › small terminase oligomerization domain 0.58 43.0 4.11e-01 83.0% 75.4%
4995864 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.58 43.0 2.99e-01 79.2% 70.3%
3238136 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 0.58 42.0 2.61e-01 79.2% 31.9%
3195503 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.57 41.0 2.44e-01 79.2% 28.9%
5019603 3010.1.1.0 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains 0.56 41.0 3.45e-01 77.4% 64.2%
4197190 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.56 39.0 3.86e-01 77.4% 91.7%
4481899 301.8.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase › ACPS 0.56 40.0 3.26e-01 84.9% 43.2%
4141218 4099.1.1.6 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Ctf19_RWD2 0.54 38.0 3.38e-01 73.6% 63.7%
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 0.54 35.0 2.06e-01 79.2% 6.8%
3935357 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 41.0 3.24e-01 90.6% 37.5%
4984049 3010.1.1.0 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains 0.53 40.0 3.23e-01 83.0% 60.0%
5041306 304.114.1.0 ↗ a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.53 37.0 3.35e-01 75.5% 52.5%
4938548 3010.1.1.2 ↗ a/b three-layered sandwiches › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › C-terminal subdomain in Lon-related proteases catalytic domains › Lon_C 0.53 37.0 2.90e-01 75.5% 55.8%
4216608 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.52 39.0 3.55e-01 84.9% 88.7%
3274048 387.1.1.0 ↗ few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related 0.52 44.0 3.63e-01 100.0% 95.1%
3401129 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.52 41.0 2.73e-01 90.6% 91.9%
3588071 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.52 45.0 3.23e-01 100.0% 42.5%
3420427 2484.1.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70 0.51 40.0 3.22e-01 98.1% 46.9%
3170024 4.1.1.41 ↗ beta barrels › SH3 › SH3 › SH3 › NOT2_3_5_C 0.51 35.0 2.49e-01 75.5% 20.0%
4946325 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 37.0 3.08e-01 83.0% 41.0%
3220485 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 0.51 43.0 2.69e-01 100.0% 80.9%
5066083 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 37.0 2.58e-01 88.7% 21.1%
5017755 169.1.1.1 ↗ alpha complex topology › Aldehyde ferredoxin oxidoreductase-C › Aldehyde ferredoxin oxidoreductase-C › Aldehyde ferredoxin oxidoreductase-C › AFOR_C 0.50 39.0 2.32e-01 96.2% 31.9%