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NC_014595.1__YP_003934871.1__SP18_gp248__00246

Bact-Vir

NC_014595.1__YP_003934871.1__SP18_gp248__00246

Identity

Accession:
NC_014595 ↗
Kingdom:
phage

Quality

96.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Gaprivervirus› Shigella_phage_SP18

TaxID: 645664

Cluster

View cluster (6 members)

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 2-75
PDB
Domain cluster: rep: IMGVR_UViG_3300032007_000207-3300032007-Ga0310695_1000254729__D2-51_64-79
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lqmA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.77 55.0 5.12e-01 86.5% 61.1%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.71 50.0 4.89e-01 73.0% 93.8%
6xaxA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 52.0 4.99e-01 86.5% 68.2%
2cuhA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 51.0 4.80e-01 86.5% 63.6%
4eq3A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 54.0 4.88e-01 86.5% 62.2%
1fyhB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 54.0 4.92e-01 87.8% 63.9%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.68 54.0 4.65e-01 86.5% 87.2%
1tdqA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 51.0 4.78e-01 86.5% 66.7%
3s9dD01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 52.0 4.82e-01 86.5% 64.6%
3frmA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 53.0 3.68e-01 86.5% 91.7%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.65 57.0 5.06e-01 100.0% 82.6%
3wkmB01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.63 47.0 4.37e-01 100.0% 63.8%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.63 49.0 4.59e-01 85.1% 96.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.63 52.0 4.15e-01 97.3% 82.0%
3ci0J02 2.10.70.20 Mainly Beta › Ribbon › Complement Module; domain 1 › gspk-gspi-gspj complex like domains 0.61 36.0 4.26e-01 86.5% 88.0%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.59 45.0 4.22e-01 82.4% 92.6%
3lb6D02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 46.0 4.29e-01 86.5% 68.5%
1sesA02 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.58 44.0 2.88e-01 79.7% 46.9%
5eoxB03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 49.0 4.12e-01 97.3% 93.0%
1bihA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 43.0 3.92e-01 86.5% 61.0%
4hnvB01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.56 47.0 3.03e-01 93.2% 48.3%
3n2qA02 3.30.300.190 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.55 46.0 4.02e-01 94.6% 68.1%
4dimA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.55 46.0 3.33e-01 93.2% 93.9%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.55 40.0 3.36e-01 78.4% 75.4%
3nuwA02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.54 43.0 3.21e-01 89.2% 61.5%
3nyiA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.54 43.0 3.55e-01 87.8% 91.2%
5yjwA00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.54 39.0 2.43e-01 78.4% 52.4%
2yx6D01 3.30.420.130 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Dinitrogenase iron-molybdenum cofactor biosynthesis domain 0.53 40.0 3.66e-01 98.6% 59.8%
3bexA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 3.92e-01 95.9% 92.0%
4dokA01 3.50.70.10 Alpha Beta › 3-Layer(bba) Sandwich › Chalcone isomerase › 0.53 38.0 3.02e-01 75.7% 83.9%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 3.51e-01 94.6% 86.9%
3h1qA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 44.0 3.89e-01 97.3% 94.8%
7x3hA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 42.0 3.70e-01 90.5% 87.9%
1tm0A01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.52 43.0 3.45e-01 97.3% 70.7%
1kblA06 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 41.0 3.79e-01 86.5% 89.8%
2x1cB01 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.52 42.0 2.99e-01 97.3% 80.1%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.52 46.0 3.40e-01 100.0% 91.3%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.52 41.0 3.38e-01 91.9% 77.0%
1qy9A02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.51 43.0 3.48e-01 100.0% 67.5%
3d4eA02 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.51 37.0 3.71e-01 77.0% 94.9%
6y79C01 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.51 38.0 2.49e-01 83.8% 80.2%
2avxA00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 41.0 3.31e-01 97.3% 65.5%
2nrhB02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.50 39.0 3.21e-01 86.5% 61.1%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4933350 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.86 46.0 3.73e-01 100.0% 30.5%
5074822 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.84 44.0 3.61e-01 100.0% 30.4%
3710329 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.78 42.0 3.67e-01 100.0% 35.5%
4674401 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.78 42.0 3.72e-01 100.0% 37.1%
4987637 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.77 52.0 3.10e-01 85.1% 10.2%
4967947 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.76 52.0 3.34e-01 85.1% 16.2%
5042577 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.76 57.0 5.76e-01 100.0% 78.7%
None — 0.74 50.0 2.96e-01 85.1% 9.0%
5014020 1001.1.1.1 ↗ a+b two layers › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Molybdop_Fe4S4 0.74 33.0 4.18e-01 83.8% 68.9%
3878447 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.74 51.0 5.12e-01 86.5% 70.7%
6667 4221.1.1.1 ↗ a+b two layers › YkuJ-like › YkuJ-like › YkuJ-like › DUF1797 0.71 50.0 4.93e-01 73.0% 96.2%
5067730 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.71 55.0 5.39e-01 100.0% 76.2%
4946220 206.1.3.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › CPSase_L_D2 0.70 50.0 3.56e-01 75.7% 59.5%
5059898 11.1.1.1410 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CarboxypepD_reg 0.69 54.0 5.29e-01 100.0% 77.5%
3955993 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.69 49.0 3.21e-01 75.7% 59.1%
5011985 2484.2.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain 0.68 38.0 3.97e-01 100.0% 57.1%
4973990 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.68 50.0 3.28e-01 78.4% 62.5%
3200366 11.1.1.236 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Mannosidase_ig 0.66 53.0 4.45e-01 86.5% 61.6%
4176014 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.66 48.0 3.20e-01 77.0% 64.7%
4029036 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.66 58.0 5.44e-01 98.6% 96.7%
4151822 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.66 38.0 3.83e-01 85.1% 56.0%
None — 0.64 54.0 3.16e-01 100.0% 12.3%
3917088 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.64 55.0 4.47e-01 95.9% 60.0%
3399617 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.64 40.0 3.77e-01 85.1% 52.2%
None — 0.63 53.0 3.11e-01 100.0% 12.1%
6742 244.4.1.3 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › NiFeSe_Hases, PF27537 0.63 31.0 4.06e-01 86.5% 91.9%
3616480 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.63 46.0 4.36e-01 90.5% 64.4%
4926989 206.1.3.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › CPSase_L_D2 0.63 52.0 3.04e-01 100.0% 11.2%
3990561 11.1.1.955 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Fn3_Dep-1_4th 0.62 49.0 4.37e-01 86.5% 66.7%
3735697 330.1.1.19 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.62 40.0 3.96e-01 100.0% 61.3%
2987895 244.4.1.2 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › NiFeSe_Hases 0.62 31.0 3.99e-01 86.5% 94.4%
5060111 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.61 52.0 3.39e-01 100.0% 49.2%
3499810 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.61 44.0 2.60e-01 75.7% 23.1%
3278788 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.60 52.0 3.65e-01 100.0% 38.0%
5058176 206.1.3.3 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › PPDK_N 0.60 51.0 3.52e-01 100.0% 45.8%
3480647 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.60 43.0 3.86e-01 85.1% 54.3%
3495037 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 47.0 3.97e-01 87.8% 63.1%
4989899 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.59 51.0 3.46e-01 100.0% 97.6%
3579644 2006.1.6.33 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › VWA_4 0.59 46.0 3.51e-01 89.2% 38.5%
3972650 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 45.0 3.98e-01 85.1% 99.1%
3615430 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 49.0 4.43e-01 100.0% 68.0%
5077631 2484.1.1.340 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Volactin 0.55 44.0 3.46e-01 86.5% 72.9%
3283393 223.3.1.3 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Transpeptidase 0.55 45.0 2.97e-01 97.3% 60.8%
4121829 316.1.1.5 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › RsfS 0.55 44.0 3.45e-01 87.8% 85.2%
3508171 3392.1.1.1 ↗ a+b two layers › Cytoplasmic domain of BfpC › Cytoplasmic domain of BfpC › Cytoplasmic domain of BfpC › PAP_PilO 0.55 43.0 3.36e-01 87.8% 38.8%
1282254 2484.1.1.46 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DGOK 0.54 43.0 3.42e-01 89.2% 77.3%
3728030 109.1.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.53 39.0 2.74e-01 75.7% 39.6%
3959732 10.39.1.0 ↗ beta sandwiches › jelly-roll › Soluble domain of MmpS4 › Soluble domain of MmpS4 0.53 47.0 4.53e-01 100.0% 100.0%
4654713 300.1.1.0 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.52 38.0 3.06e-01 75.7% 40.7%
4974741 304.125.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in Api92-like proteins › ferredoxin-like domain in Api92-like proteins 0.52 43.0 4.16e-01 95.9% 100.0%
4150972 2484.1.1.11 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ribosomal_L18p 0.52 42.0 3.97e-01 90.5% 86.7%
3272364 206.1.2.2 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › PIP5K 0.52 41.0 2.90e-01 91.9% 40.8%
3581093 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.51 35.0 3.47e-01 98.6% 66.3%
4096071 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.51 41.0 3.14e-01 90.5% 53.5%
5050718 300.1.1.6 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › Regulator_TrmB 0.51 40.0 3.14e-01 86.5% 75.2%
4224746 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.51 39.0 3.49e-01 95.9% 57.3%
4467977 330.1.1.19 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.51 42.0 3.72e-01 100.0% 63.8%
4663370 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.50 39.0 3.41e-01 90.5% 72.7%
4338742 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.50 43.0 3.12e-01 100.0% 33.3%