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S2_003_000_R3_scaffold_4_prodigal-single.1__X__X__00017

Bact-Vir

S2_003_000_R3_scaffold_4_prodigal-single.1__X__X__00017

Identity

Kingdom:
phage

Quality

56.7 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

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

D1 high residues 17-117
PDB
D2 high residues 139-193
PDB
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ga8A00 3.10.20.860 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.71 62.0 5.88e-01 100.0% 82.1%
1xexB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.67 49.0 3.49e-01 78.2% 46.6%
3bzwF00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.63 50.0 3.32e-01 87.3% 69.5%
3ih5A00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.62 39.0 2.70e-01 72.7% 17.1%
4yg6B00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.61 39.0 2.87e-01 98.2% 22.1%
1fx0B01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.61 42.0 3.84e-01 87.3% 51.9%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.61 41.0 3.82e-01 89.1% 53.5%
3l60A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.61 52.0 3.51e-01 98.2% 32.3%
5b55A01 3.40.50.1100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.60 49.0 3.51e-01 96.4% 80.5%
4a2bA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.60 47.0 3.66e-01 92.7% 41.3%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 43.0 3.59e-01 80.0% 61.2%
6zzmA01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.59 50.0 3.37e-01 98.2% 30.3%
1z1yA01 2.90.20.10 Mainly Beta › Orthogonal Prism › Plasmodium vivax P25 fold › Plasmodium vivax P25 domain 0.59 36.0 2.55e-01 81.8% 19.4%
1w36B03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 44.0 2.74e-01 80.0% 33.1%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 40.0 3.30e-01 72.7% 58.2%
5exvC00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.59 43.0 3.09e-01 90.9% 26.7%
3cxbA02 3.30.390.70 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Salmonella typhimurium protein 0.59 47.0 3.96e-01 96.4% 95.3%
4c92G00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.58 38.0 3.49e-01 90.9% 49.3%
4p1mB01 3.30.160.880 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Cell division protein ZapA protomer, N-terminal domain 0.58 37.0 3.93e-01 94.5% 80.0%
4c23B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 45.0 3.03e-01 90.9% 23.5%
6kmoB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.56 49.0 3.04e-01 100.0% 92.1%
2dchX02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.55 45.0 3.72e-01 96.4% 85.6%
3g1nA02 3.30.2160.10 Alpha Beta › 2-Layer Sandwich › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain 0.55 41.0 3.70e-01 90.9% 57.5%
1erzA00 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.55 41.0 2.62e-01 85.5% 21.1%
2i9yA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 47.0 3.44e-01 100.0% 94.3%
2mc3A00 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 0.54 44.0 3.57e-01 89.1% 83.5%
4indA01 2.60.120.1320 Mainly Beta › Sandwich › Jelly Rolls › 0.54 41.0 3.05e-01 83.6% 72.6%
2rdpA00 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 0.54 46.0 3.43e-01 94.5% 55.0%
4mh4A02 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.54 40.0 3.43e-01 83.6% 79.8%
2qlzA02 6.10.250.2960 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.53 41.0 3.54e-01 83.6% 91.9%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.53 41.0 2.78e-01 81.8% 46.8%
5zyrA02 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 44.0 3.24e-01 94.5% 48.3%
1qlmA02 3.30.1030.10 Alpha Beta › 2-Layer Sandwich › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 0.52 41.0 2.95e-01 96.4% 73.2%
4kt3B00 3.10.450.170 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › type vi secretion system effector-immunity co pseudomonas protegens 0.52 43.0 3.30e-01 92.7% 65.6%
4okeA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 44.0 3.23e-01 100.0% 67.5%
1qmgB01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 40.0 2.73e-01 87.3% 82.4%
6dgiA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 40.0 3.10e-01 92.7% 79.9%
3gveA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.51 42.0 2.63e-01 96.4% 50.3%
4c89C00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 43.0 2.66e-01 100.0% 24.2%
ECOD (57)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4992806 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.81 64.0 6.45e-01 98.2% 87.3%
4947479 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.76 54.0 5.62e-01 83.6% 84.0%
4968647 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 54.0 5.73e-01 87.3% 100.0%
4968450 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 54.0 5.49e-01 94.5% 85.5%
5081200 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 54.0 5.30e-01 98.2% 76.7%
4992532 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 56.0 5.48e-01 92.7% 81.7%
380878 375.1.1.55 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › MqsA_antitoxin 0.70 60.0 5.65e-01 100.0% 78.6%
5030510 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.70 48.0 5.03e-01 83.6% 80.0%
4968137 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 55.0 5.58e-01 100.0% 89.1%
5061538 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 51.0 5.13e-01 90.9% 81.8%
4944756 3604.1.1.0 a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.68 52.0 5.09e-01 94.5% 76.7%
4966283 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 54.0 5.17e-01 100.0% 75.4%
5031701 375.1.1.55 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › MqsA_antitoxin 0.67 57.0 5.42e-01 100.0% 83.1%
4493573 4964.1.1.2 alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.67 50.0 3.35e-01 80.0% 56.0%
5031242 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.66 53.0 5.22e-01 100.0% 85.0%
5005640 3604.1.1.1 a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Ni_insertion 0.66 49.0 4.66e-01 98.2% 67.7%
4382942 327.4.1.1 a+b two layers › Alpha-lytic protease prodomain-like › YhbC-like, N-terminal domain › YhbC-like, N-terminal domain › RimP_N 0.66 49.0 4.26e-01 81.8% 80.0%
4972215 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.66 45.0 2.97e-01 70.9% 32.4%
4661366 375.1.1.271 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › YokU 0.65 53.0 4.98e-01 100.0% 73.3%
4947615 3604.1.1.0 a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.64 48.0 4.64e-01 92.7% 70.8%
3982740 5086.1.1.190 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › OEP 0.64 44.0 2.93e-01 70.9% 25.5%
4933528 3926.1.1.1 alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.64 56.0 3.78e-01 100.0% 33.8%
3346388 180.1.1.1 alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.63 43.0 2.89e-01 70.9% 20.5%
3930311 220.1.1.176 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7778 0.62 41.0 3.21e-01 90.9% 30.8%
3864913 218.1.1.2 a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.61 48.0 3.65e-01 94.5% 76.8%
3585877 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 0.61 46.0 3.05e-01 83.6% 78.8%
3623948 389.1.1.111 few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › TNFR_nem 0.60 28.0 3.20e-01 76.4% 52.5%
3990856 304.112.1.0 a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.59 43.0 3.30e-01 80.0% 76.4%
4303954 2484.1.1.178 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA+FtsA 0.59 46.0 2.87e-01 90.9% 14.5%
4991381 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 47.0 3.66e-01 87.3% 43.7%
4993925 375.1.1.338 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF7479 0.59 41.0 4.25e-01 94.5% 86.0%
4998602 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.59 43.0 3.05e-01 90.9% 22.4%
5057564 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.58 45.0 3.27e-01 85.5% 48.8%
3389001 883.1.1.3 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › JHBP 0.58 41.0 2.81e-01 78.2% 75.7%
3506789 883.1.1.0 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like 0.58 43.0 3.07e-01 81.8% 91.4%
5014788 2008.1.1.108 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 0.57 42.0 3.48e-01 85.5% 50.4%
3439826 331.4.1.0 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.57 41.0 3.01e-01 76.4% 66.0%
3214019 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 0.56 47.0 2.85e-01 90.9% 91.9%
4102293 2484.1.1.13 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.56 38.0 2.65e-01 70.9% 47.9%
3289350 10.12.1.12 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › TauD 0.56 42.0 2.69e-01 80.0% 48.5%
4000297 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 0.55 49.0 2.99e-01 100.0% 85.0%
3937930 206.1.1.10 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.54 47.0 2.87e-01 100.0% 81.5%
3663319 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 41.0 3.02e-01 94.5% 28.7%
5056801 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 38.0 3.04e-01 78.2% 66.4%
3515855 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.54 36.0 3.08e-01 96.4% 39.0%
4974958 2004.1.2.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › PEP carboxykinase catalytic C-terminal domain 0.53 46.0 2.78e-01 96.4% 52.2%
4382259 3926.1.1.1 alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.53 46.0 3.15e-01 98.2% 33.5%
4949473 5086.1.1.230 alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ATP-synt_D 0.53 47.0 3.16e-01 100.0% 32.2%
3971910 5069.1.1.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Transmembrane di-heme cytochromes 0.53 46.0 2.94e-01 100.0% 89.7%
5056727 3926.1.1.1 alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.51 44.0 3.05e-01 100.0% 35.6%
3249604 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.51 42.0 2.90e-01 98.2% 61.8%
5078639 3926.1.1.1 alpha bundles › V-type proton ATPase subunit D › V-type proton ATPase subunit D › V-type proton ATPase subunit D › ATP-synt_D 0.51 43.0 3.07e-01 100.0% 33.2%
4076048 2492.1.1.4 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.51 41.0 2.89e-01 98.2% 31.4%
5048918 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 42.0 3.16e-01 89.1% 85.2%
3415802 1.1.17.1 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.51 38.0 2.50e-01 87.3% 18.2%
4953653 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.50 37.0 3.47e-01 83.6% 82.7%
5048115 4294.1.1.2 few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › Trm112p 0.50 38.0 3.29e-01 87.3% 97.9%