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BML_08042016_6_5m_scaffold_18_prodigal-single.1__X__X__00063

Bact-Vir

BML_08042016_6_5m_scaffold_18_prodigal-single.1__X__X__00063

Identity

Kingdom:
phage

Quality

72.5 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 4-72
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2nlkA02 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.75 44.0 2.95e-01 76.8% 15.8%
1ue6D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.74 57.0 4.95e-01 100.0% 54.8%
2hqlA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.71 54.0 4.91e-01 100.0% 61.5%
3kojB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.71 56.0 5.10e-01 100.0% 65.6%
3fhwA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.67 55.0 4.83e-01 100.0% 61.6%
1vwxB03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.63 56.0 4.62e-01 100.0% 99.2%
1y8cA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.62 35.0 3.77e-01 76.8% 63.3%
2be3B01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.61 40.0 3.25e-01 76.8% 34.8%
3c8iA00 2.40.410.10 Mainly Beta › Beta Barrel › putative membrane protein from Corynebacterium diphtheriae fold › putative membrane protein from Corynebacterium diphtheriae superfamily 0.61 49.0 4.05e-01 98.6% 48.8%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 49.0 4.32e-01 94.2% 86.4%
6kjuB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.60 38.0 3.29e-01 78.3% 38.5%
3en2A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.60 49.0 4.52e-01 94.2% 94.5%
6fgjA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.59 45.0 3.49e-01 81.2% 88.7%
4xa2A01 3.30.700.10 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › Glycoprotein, Type 4 Pilin 0.58 36.0 3.13e-01 75.4% 38.1%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 48.0 4.35e-01 97.1% 90.3%
6zj8D01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.58 38.0 3.25e-01 78.3% 39.5%
1yaxB00 3.30.450.140 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PhoQ sensor domain 0.58 43.0 3.54e-01 81.2% 91.0%
4hoiB00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.58 39.0 3.31e-01 78.3% 41.2%
4lizA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.57 46.0 3.74e-01 91.3% 77.5%
1cfyA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.57 46.0 3.84e-01 92.8% 82.7%
5axmB00 3.30.70.3000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › tRNA(His) guanylyltransferase (Thg1) 0.56 45.0 3.19e-01 91.3% 75.3%
2d8bA01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.56 47.0 3.77e-01 94.2% 79.3%
2gaiA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.56 48.0 4.00e-01 100.0% 54.5%
5uj1A03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.56 49.0 3.71e-01 100.0% 46.8%
2gtlO02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.55 46.0 3.56e-01 94.2% 60.1%
1t3yA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.55 45.0 3.71e-01 92.8% 79.4%
3qcpA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 47.0 3.57e-01 97.1% 65.5%
2lxxA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.53 42.0 3.37e-01 89.9% 81.6%
1x67A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.53 44.0 3.62e-01 94.2% 78.9%
3butA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 3.58e-01 89.9% 92.8%
4gn2A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 44.0 3.19e-01 100.0% 94.6%
2z4hA02 2.40.50.540 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › NlpE, C-terminal domain 0.53 36.0 3.45e-01 100.0% 58.1%
1y1uA02 2.60.40.630 Mainly Beta › Sandwich › Immunoglobulin-like › STAT transcription factor, DNA-binding domain 0.53 39.0 3.25e-01 81.2% 78.5%
1luiA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.53 46.0 4.01e-01 100.0% 68.5%
1bywA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 34.0 3.01e-01 79.7% 40.9%
3ewkA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 35.0 3.11e-01 78.3% 45.6%
1olzA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 45.0 2.79e-01 100.0% 40.4%
6lofA00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.52 45.0 3.51e-01 100.0% 48.1%
3uoaB02 2.60.40.3360 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 38.0 3.12e-01 81.2% 83.8%
3luqB00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 37.0 3.21e-01 78.3% 96.5%
1lqvB00 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.51 37.0 2.91e-01 81.2% 65.3%
2n8xA00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.51 42.0 3.28e-01 97.1% 62.7%
7alkA01 2.60.40.3510 Mainly Beta › Sandwich › Immunoglobulin-like › 0.51 36.0 2.91e-01 78.3% 70.0%
1dzaA00 3.10.130.10 Alpha Beta › Roll › P-30 Protein › Ribonuclease A-like domain 0.51 41.0 3.46e-01 89.9% 68.3%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3783432 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.74 62.0 5.31e-01 100.0% 59.0%
3391461 3308.2.1.1 beta duplicates or obligate multimers › periplasmic lysozyme inhibitor of I-type lysozyme-like › XAC2610 protein › XAC2610 protein › 4_1_CTD 0.73 41.0 4.01e-01 76.8% 50.7%
3389219 206.1.1.55 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › EcKL 0.73 52.0 3.14e-01 81.2% 12.3%
3616890 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.72 60.0 4.99e-01 100.0% 53.9%
3639738 2.1.1.6 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB 0.71 56.0 5.73e-01 95.7% 88.1%
3789933 11.10.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.70 44.0 3.80e-01 76.8% 41.9%
3458604 243.3.1.19 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › DUF3615 0.68 46.0 4.50e-01 76.8% 64.0%
5012813 2004.1.1.293 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_15 0.68 40.0 2.59e-01 76.8% 12.7%
3788481 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.68 46.0 2.84e-01 76.8% 11.8%
3413189 2.1.1.141 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › WCOB 0.66 60.0 4.47e-01 100.0% 44.8%
3284948 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.64 56.0 5.24e-01 100.0% 82.4%
3750534 2.1.1.257 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › PF30832 0.63 56.0 4.49e-01 100.0% 51.9%
3931232 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 52.0 4.25e-01 91.3% 54.4%
3964606 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.62 54.0 4.11e-01 100.0% 60.0%
3706357 298.1.1.0 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.61 46.0 3.18e-01 79.7% 76.0%
3990202 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 46.0 3.91e-01 79.7% 71.8%
3940677 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.60 45.0 3.38e-01 91.3% 29.7%
4122961 2.1.1.122 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SSB_1 0.60 50.0 4.47e-01 94.2% 94.0%
3503098 223.1.1.13 a+b three layers › Profilin-like › sensor domains › sensor domains › PAS_3 0.60 40.0 3.60e-01 75.4% 49.5%
3924732 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.59 48.0 3.51e-01 88.4% 94.7%
4402835 4010.1.1.2 a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_1,RNA_pol_Rpb2_3 0.59 52.0 3.53e-01 100.0% 45.7%
3412116 206.1.1.88 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › EcKL, DUF1679 0.59 48.0 2.97e-01 88.4% 25.4%
3584211 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.59 45.0 3.54e-01 82.6% 43.4%
3602665 832.1.1.1 a+b three layers › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › N-terminal domain of eukaryotic peptide chain release factor subunit 1, ERF1 › eRF1_1 0.58 50.0 4.02e-01 100.0% 75.7%
4955607 3435.1.1.0 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.57 45.0 3.19e-01 85.5% 34.0%
5036533 3435.1.1.0 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.57 45.0 3.19e-01 87.0% 31.6%
3566799 11.1.1.537 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Sp38 0.57 42.0 3.67e-01 79.7% 67.6%
4013811 4.8.1.22 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.56 46.0 4.23e-01 91.3% 68.9%
3720815 4.1.1.225 beta barrels › SH3 › SH3 › SH3 › DUF7025 0.56 48.0 4.11e-01 98.6% 75.7%
5077635 1.1.2.0 beta barrels › cradle loop barrel › RIFT-related › double psi 0.56 46.0 3.65e-01 92.8% 100.0%
3188394 4.8.1.22 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.56 47.0 3.96e-01 95.7% 66.7%
5034777 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 47.0 3.58e-01 98.6% 60.0%
3865594 11.1.1.640 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ZP-N 0.55 41.0 3.54e-01 79.7% 58.2%
3628355 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.55 47.0 3.07e-01 97.1% 34.6%
4990210 283.2.1.8 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › PF29994 0.54 41.0 3.71e-01 81.2% 94.7%
4672222 4010.1.1.3 a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_3 0.54 45.0 3.17e-01 100.0% 55.9%
3687369 4.1.1.225 beta barrels › SH3 › SH3 › SH3 › DUF7025 0.54 44.0 3.98e-01 92.8% 71.0%
3937258 220.1.1.159 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_met_RdRP 0.54 46.0 3.32e-01 95.7% 50.7%
4013325 4.1.1.225 beta barrels › SH3 › SH3 › SH3 › DUF7025 0.54 47.0 3.90e-01 98.6% 53.6%
4012953 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 45.0 3.64e-01 98.6% 80.7%
3592605 298.1.1.0 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.54 37.0 2.79e-01 78.3% 28.0%
3534592 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 34.0 3.68e-01 76.8% 80.0%
3211518 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.54 39.0 3.69e-01 79.7% 98.9%
3723082 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 45.0 3.04e-01 95.7% 27.5%
3577471 221.13.1.0 a+b two layers › beta-Grasp › Mitochondrial calcium uniporter N-terminal domain › Mitochondrial calcium uniporter N-terminal domain 0.53 45.0 3.78e-01 98.6% 90.0%
3175183 868.1.1.4 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › VTC 0.53 44.0 2.92e-01 95.7% 29.8%
3601335 298.1.1.0 a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.53 38.0 2.91e-01 79.7% 89.4%
3173251 4051.1.1.1 a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F_actin_cap_B 0.52 47.0 3.52e-01 100.0% 53.5%
3517350 5.1.5.4 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DPPIV_N 0.52 39.0 2.61e-01 97.1% 17.5%
3497397 395.1.1.0 few secondary structure elements › Midkine-related › Midkine-related › Midkine-related 0.52 33.0 3.27e-01 78.3% 58.7%
4965857 377.1.1.0 few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.51 42.0 4.22e-01 95.7% 100.0%
4978573 230.1.1.5 a+b two layers › T-fold › Tetrahydrobiopterin biosynthesis enzymes-like › Tetrahydrobiopterin biosynthesis enzymes-like › GCHY-1 0.51 38.0 3.18e-01 84.1% 83.0%
3404608 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 38.0 3.25e-01 81.2% 70.4%
4508852 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.51 42.0 3.63e-01 97.1% 76.5%
3389979 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.50 40.0 3.40e-01 91.3% 51.7%