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MH512890.1__AXF41211.1__S-TIM4_ORF_75__00075

Bact-Vir

MH512890.1__AXF41211.1__S-TIM4_ORF_75__00075

Identity

Accession:
MH512890 ↗
Kingdom:
phage

Quality

73.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Thaumasvirus› Cyanophage_S-TIM4

TaxID: 1048189

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 medium residues 1-29
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k5iA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.74 54.0 3.31e-01 86.2% 38.9%
3n2oC01 2.40.37.10 Mainly Beta › Beta Barrel › Lyase, Ornithine Decarboxylase; Chain A, domain 1 › Lyase, Ornithine Decarboxylase; Chain A, domain 1 0.70 54.0 3.34e-01 96.6% 59.6%
2ogjA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.69 54.0 3.79e-01 96.6% 40.9%
3lh4A00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.69 50.0 3.56e-01 96.6% 60.9%
2icsA01 2.30.40.10 Mainly Beta › Roll › Urease, subunit C; domain 1 › Urease, subunit C, domain 1 0.67 52.0 3.79e-01 100.0% 46.5%
4da2A02 3.40.1350.60 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.67 49.0 3.25e-01 93.1% 74.3%
3dorA02 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.67 48.0 3.34e-01 93.1% 21.5%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.67 50.0 3.09e-01 100.0% 34.4%
3pp9B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 49.0 3.16e-01 100.0% 56.3%
1wcdJ01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.64 45.0 2.75e-01 96.6% 10.7%
1a3cA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.63 46.0 3.04e-01 96.6% 35.5%
2v90C00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.62 45.0 3.35e-01 89.7% 32.3%
1hw5A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 46.0 3.19e-01 96.6% 34.9%
1o5lA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 41.0 2.96e-01 93.1% 35.7%
1a2vA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.60 44.0 2.52e-01 100.0% 9.3%
2onfA01 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.60 46.0 3.10e-01 89.7% 47.0%
1fs7A01 1.10.1130.10 Mainly Alpha › Orthogonal Bundle › Flavocytochrome C3; Chain A, domain 2 › Flavocytochrome C3; Chain A 0.59 43.0 2.44e-01 75.9% 13.3%
7pzaA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 47.0 3.24e-01 96.6% 36.9%
1ewqB01 3.40.1170.10 Alpha Beta › 3-Layer(aba) Sandwich › MutS, DNA mismatch repair protein, domain I › DNA repair protein MutS, domain I 0.58 41.0 3.01e-01 100.0% 55.1%
4bg8A01 3.30.420.430 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.58 44.0 3.01e-01 82.8% 18.6%
3jq0A00 1.25.40.390 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.58 48.0 2.69e-01 96.6% 45.0%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 40.0 3.14e-01 82.8% 31.2%
4gs5A01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.57 41.0 2.47e-01 82.8% 63.5%
3e07A00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.57 46.0 3.37e-01 86.2% 27.8%
3u83A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 41.0 3.04e-01 86.2% 24.8%
3njaA02 2.10.70.100 Mainly Beta › Ribbon › Complement Module; domain 1 › 0.57 38.0 3.73e-01 89.7% 82.6%
1wkyA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 39.0 2.70e-01 96.6% 38.2%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.56 38.0 2.60e-01 96.6% 28.5%
2oseA00 2.40.100.10 Mainly Beta › Beta Barrel › Cyclophilin › Cyclophilin-like 0.56 42.0 2.74e-01 100.0% 41.5%
3e66A01 3.30.420.230 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Prp8 RNase H domain, palm region 0.55 38.0 2.61e-01 96.6% 24.2%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 39.0 2.49e-01 93.1% 37.5%
1vq8R00 3.90.470.10 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 0.55 36.0 2.55e-01 89.7% 96.0%
1ilvA00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.53 42.0 2.54e-01 82.8% 9.0%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 35.0 2.74e-01 93.1% 90.2%
5z06B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 36.0 2.88e-01 89.7% 28.3%
1o75A02 2.30.30.470 Mainly Beta › Roll › SH3 type barrels. › Penicillin-binding protein Tp47, domain B 0.53 37.0 2.76e-01 86.2% 77.7%
2bbaA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 37.0 2.40e-01 86.2% 61.1%
2y3aA01 3.10.20.770 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 39.0 2.35e-01 89.7% 27.9%
5ib9A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.52 36.0 2.24e-01 96.6% 30.9%
3n77A00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.52 40.0 2.73e-01 82.8% 16.3%
7r5mA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.50 32.0 2.14e-01 96.6% 16.6%
5f3bD00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.50 34.0 2.68e-01 93.1% 40.8%
3gqhA02 4.10.80.40 Few Secondary Structures › Irregular › Rhinovirus 14, subunit 4 › succinate dehydrogenase protein domain 0.50 38.0 3.59e-01 79.3% 57.5%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3346566 1.1.7.85 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › BRX 0.79 59.0 4.92e-01 86.2% 45.5%
3306435 245.3.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Colicin S4 receptor-binding domain › Colicin S4 receptor-binding domain › BRX 0.77 60.0 5.01e-01 89.7% 53.7%
3376457 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.77 56.0 3.95e-01 86.2% 25.0%
3335040 5.1.3.129 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BRX 0.76 57.0 4.82e-01 89.7% 54.5%
4001646 206.1.3.12 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › TTL 0.75 54.0 3.45e-01 82.8% 15.0%
3320717 3433.1.1.3 ↗ a+b duplicates or obligate multimers › ParB dimerization domain › ParB dimerization domain › Plasmid-encoded ParB dimerization domain › BRX 0.74 55.0 4.66e-01 86.2% 46.3%
3376285 706.1.1.4 ↗ beta complex topology › Head domain of nucleotide exchange factor GrpE › Head domain of nucleotide exchange factor GrpE › Head domain of nucleotide exchange factor GrpE › BRX 0.74 54.0 4.71e-01 89.7% 56.6%
3988836 706.2.1.1 ↗ beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G › G5 0.72 51.0 4.28e-01 86.2% 43.3%
2719886 5084.5.3.1 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel 0.71 52.0 2.78e-01 93.1% 3.2%
3254341 207.2.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like 0.70 51.0 3.02e-01 86.2% 9.4%
3404845 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.69 48.0 3.57e-01 86.2% 26.3%
3510073 70.3.1.0 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like 0.68 48.0 2.87e-01 93.1% 10.0%
3721318 2484.1.1.110 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.68 47.0 3.60e-01 82.8% 28.2%
3618924 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 52.0 2.94e-01 100.0% 75.1%
4847869 5.1.4.16 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.67 47.0 2.85e-01 86.2% 10.4%
4809699 3781.1.1.1 ↗ a+b two layers › Ribosomal protein L11/L12e N-terminal domain-like › Ribosomal protein L11/L12e N-terminal domain › Ribosomal protein L11/L12e N-terminal domain › Ribosomal_L11_N 0.65 46.0 3.80e-01 86.2% 36.9%
3661968 3939.1.1.0 ↗ alpha duplicates or obligate multimers › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain › XRCC4 C-terminal oligomerization domain 0.64 49.0 2.79e-01 96.6% 16.2%
3999389 11.1.1.650 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CNRIP1 0.63 44.0 3.25e-01 93.1% 71.8%
4924546 325.1.1.9 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › CO dehydrogenase molybdoprotein N-domain-like › CPSase_L_D2 0.62 45.0 3.23e-01 82.8% 22.4%
2599793 7510.1.1.4 ↗ a/b three-layered sandwiches › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › IDH 0.61 42.0 2.56e-01 82.8% 10.0%
3965192 1.1.13.67 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DUF2460 0.60 45.0 3.20e-01 100.0% 90.4%
3337266 2004.1.1.212 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Microtub_bd 0.60 43.0 2.51e-01 75.9% 8.3%
3351840 284.1.3.2 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C 0.59 42.0 3.49e-01 86.2% 42.0%
4863479 2003.1.2.16 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.59 42.0 2.69e-01 96.6% 14.9%
3940681 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 39.0 2.27e-01 86.2% 7.0%
3636193 101.1.9.83 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › TRM 0.57 41.0 2.81e-01 86.2% 19.3%
4681454 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.56 40.0 2.56e-01 89.7% 35.0%
4639306 109.4.1.1255 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N, Cnd1 0.56 43.0 2.31e-01 86.2% 20.8%
3726658 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.56 39.0 2.50e-01 79.3% 32.8%
4307447 2486.1.1.7 ↗ a/b three-layered sandwiches › ClpP/crotonase › ClpP/crotonase › ClpP/crotonase › Peptidase_S41 0.56 38.0 2.55e-01 96.6% 29.0%
3721350 312.1.1.11 ↗ a+b three layers › HIT-like › HIT-related › HIT-related › Ap4A_phos_N 0.56 41.0 2.68e-01 100.0% 88.6%
1694874 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.55 40.0 2.30e-01 93.1% 35.2%
4624270 2003.1.5.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.55 43.0 2.62e-01 79.3% 9.2%
4532030 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.55 37.0 2.52e-01 93.1% 62.9%
1560725 3974.1.1.1 ↗ beta duplicates or obligate multimers › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA-2 N-terminal dimerization (END) domain › EBNA2_N 0.54 39.0 3.43e-01 89.7% 40.3%
3720434 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.53 39.0 2.51e-01 79.3% 12.4%
3411639 394.1.1.1 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › CBM_14 0.53 40.0 3.52e-01 75.9% 67.3%
3195147 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.51 39.0 2.54e-01 86.2% 13.5%
4824578 206.1.1.7 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PI3_PI4_kinase 0.51 38.0 3.43e-01 93.1% 50.9%
5083028 2487.1.1.9 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › Cyclase 0.50 34.0 2.26e-01 96.6% 48.8%
3950094 323.1.1.0 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases 0.50 35.0 2.21e-01 100.0% 38.5%