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ALT_09252017_20_scaffold_10_prodigal-single.1__X__X__00318

Bact-Vir

ALT_09252017_20_scaffold_10_prodigal-single.1__X__X__00318

Identity

Kingdom:
phage

Quality

48.0 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 195-281
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2j8bA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.64 49.0 5.18e-01 86.2% 93.6%
2izvA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.60 36.0 2.93e-01 86.2% 31.3%
2b5iD01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.57 32.0 3.60e-01 89.7% 71.6%
4ffeX00 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 0.57 41.0 3.49e-01 77.0% 86.7%
5xweA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.57 33.0 3.82e-01 89.7% 92.2%
2k13X00 3.50.4.10 Alpha Beta › 3-Layer(bba) Sandwich › Hepatocyte Growth Factor › Hepatocyte Growth Factor 0.57 47.0 4.50e-01 93.1% 80.6%
2l97A01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.56 39.0 3.82e-01 73.6% 73.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.55 38.0 3.07e-01 70.1% 94.6%
4ktwA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 38.0 3.17e-01 71.3% 91.3%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.54 41.0 3.57e-01 80.5% 94.0%
7co7D03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 37.0 3.64e-01 72.4% 77.7%
2hfsA01 3.30.230.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.53 38.0 3.12e-01 77.0% 95.0%
5k2mA02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.53 36.0 3.92e-01 98.9% 89.9%
1d0nA06 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.51 42.0 3.81e-01 100.0% 66.1%
1xezA01 3.30.110.130 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hemolytic toxin, N-terminal domain 0.51 41.0 4.21e-01 86.2% 93.8%
2nutB05 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.50 36.0 3.23e-01 77.0% 72.1%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3511271 214.1.1.10 a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.66 40.0 3.65e-01 86.2% 46.1%
3509725 1.1.17.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.63 46.0 3.38e-01 78.2% 78.8%
3546286 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.60 36.0 3.20e-01 86.2% 40.8%
4950808 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.60 44.0 3.33e-01 79.3% 96.9%
4960201 246.2.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.60 45.0 3.32e-01 80.5% 99.1%
4931731 246.2.1.0 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.60 45.0 3.41e-01 82.8% 98.3%
3799950 355.1.1.0 few secondary structure elements › Trefoil/Plexin domain-like › Trefoil/Plexin domain-like › Trefoil/Plexin domain-like 0.58 36.0 4.11e-01 98.9% 96.4%
3173230 376.1.1.32 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP_var 0.57 48.0 4.38e-01 94.3% 89.2%
200136 390.1.1.0 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.57 47.0 4.50e-01 93.1% 80.6%
3414808 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.56 36.0 3.23e-01 87.4% 46.7%
3926328 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.56 42.0 4.28e-01 81.6% 90.6%
3246591 2492.1.1.8 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.56 45.0 3.64e-01 94.3% 73.7%
1088701 2484.1.1.54 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF3882 0.55 38.0 3.17e-01 71.3% 91.3%
3928752 382.1.1.0 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.55 43.0 4.46e-01 92.0% 92.5%
3723009 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 37.0 3.18e-01 70.1% 51.7%
3227877 390.1.1.1 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.54 38.0 3.93e-01 77.0% 76.5%
4026776 317.1.1.1 a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.54 39.0 3.17e-01 75.9% 64.6%
3509904 7.1.1.0 beta barrels › PDZ domain › PDZ domain › PDZ domain 0.53 42.0 4.33e-01 87.4% 97.6%
3399432 382.1.1.14 few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › DUF753 0.52 42.0 4.37e-01 94.3% 96.2%
4484851 60.1.1.3 beta barrels › SPOC domain-like › SPOC domain-related › SPOC domain › Sld7_N 0.52 42.0 3.48e-01 87.4% 84.7%
3400212 209.1.1.1 a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.51 41.0 3.50e-01 87.4% 60.0%
135643 7.1.1.5 beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ_2 0.51 35.0 3.59e-01 72.4% 82.8%
3221497 390.1.1.7 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_3 0.51 34.0 3.63e-01 72.4% 80.0%
3499134 2485.1.1.1 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.50 40.0 3.46e-01 87.4% 69.3%
4943244 69.1.1.0 beta complex topology › Hedgehog/intein › Hedgehog/intein › Hint 0.50 37.0 3.07e-01 79.3% 85.9%
D2 high residues 933-1000_1052-1142
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18760.8 best ART-PolyVal 71.5 1.80e-19 91.8% 95.0%
D3 high residues 1856-1936
PDB
Domain cluster: representative
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7e6gA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.59 41.0 3.36e-01 71.6% 85.9%
7snsB01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 38.0 3.09e-01 70.4% 37.0%
4limA00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.56 45.0 2.99e-01 91.4% 77.2%
2k13X00 3.50.4.10 Alpha Beta › 3-Layer(bba) Sandwich › Hepatocyte Growth Factor › Hepatocyte Growth Factor 0.56 41.0 3.87e-01 92.6% 63.1%
2hqyA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 40.0 3.46e-01 76.5% 96.2%
1ae2A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 30.0 3.00e-01 100.0% 50.0%
4hiaA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.55 47.0 3.75e-01 97.5% 92.6%
5cmlA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 47.0 3.44e-01 100.0% 49.6%
1z1dB00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.53 45.0 3.90e-01 97.5% 84.7%
1bvuA01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.53 47.0 3.86e-01 98.8% 75.3%
5a72A00 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.53 40.0 3.26e-01 82.7% 77.1%
7f79A01 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.52 47.0 3.69e-01 98.8% 66.3%
3dfeA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 35.0 3.56e-01 70.4% 91.5%
1hwyA02 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.51 46.0 3.74e-01 98.8% 75.2%
2kviA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 36.0 3.71e-01 100.0% 77.9%
1mw7A03 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.51 33.0 3.46e-01 100.0% 72.0%
1nqzA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.51 39.0 3.12e-01 84.0% 50.9%
1kohA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.50 35.0 3.39e-01 74.1% 95.9%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3796258 390.1.1.0 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.62 43.0 4.44e-01 90.1% 77.3%
2990398 1118.1.1.1 a+b complex topology › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › Anchorless fibronectin/fibrinogen binding protein C-terminal domain › NFACT-R_1 0.61 52.0 4.15e-01 100.0% 53.6%
3604362 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 37.0 3.88e-01 71.6% 66.7%
4974273 3501.1.1.0 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 0.60 30.0 3.22e-01 84.0% 54.3%
3240166 7579.1.1.70 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF1057 0.60 54.0 3.60e-01 100.0% 34.6%
5069272 212.1.1.0 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.58 44.0 4.20e-01 84.0% 91.0%
4003445 390.1.1.0 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.56 34.0 3.74e-01 90.1% 75.4%
3892181 304.8.1.85 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › KH_PARP14_4 0.56 32.0 3.40e-01 84.0% 62.9%
3221726 7579.1.1.70 a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › DUF1057 0.55 50.0 3.35e-01 100.0% 57.7%
4597126 212.1.1.18 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Lon_C 0.55 43.0 3.58e-01 84.0% 67.1%
3435107 390.1.1.1 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.55 38.0 3.84e-01 92.6% 70.6%
5066572 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.54 37.0 3.44e-01 70.4% 71.4%
3936260 390.1.1.0 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.54 38.0 3.97e-01 90.1% 80.0%
3667726 242.1.1.2 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_2 0.54 37.0 3.47e-01 70.4% 74.0%
3227877 390.1.1.1 few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like › PAN_1 0.52 39.0 3.89e-01 90.1% 76.5%
4937548 304.54.1.0 a+b two layers › Alpha-beta plaits › CcmK-like › CcmK-like 0.52 29.0 3.28e-01 85.2% 74.5%
5023619 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.52 32.0 3.30e-01 84.0% 65.3%
4222799 242.1.1.1 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_1 0.51 38.0 3.16e-01 82.7% 78.1%
D4 medium residues 560-678
PDB
D5 medium residues 839-929
PDB
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ydxA01 3.90.220.20 Alpha Beta › Alpha-Beta Complex › Adenine-n6-DNA-methyltransferase TaqI; Chain A, domain 2 › DNA methylase specificity domains 0.81 76.0 6.65e-01 100.0% 95.3%
1yf2A03 3.90.220.20 Alpha Beta › Alpha-Beta Complex › Adenine-n6-DNA-methyltransferase TaqI; Chain A, domain 2 › DNA methylase specificity domains 0.80 75.0 6.28e-01 100.0% 96.6%
1p99A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.56 46.0 3.91e-01 87.9% 86.1%
6h9dA00 1.10.530.40 Mainly Alpha › Orthogonal Bundle › Lysozyme › 0.55 40.0 3.39e-01 75.8% 61.5%
1v89A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 37.0 3.41e-01 71.4% 89.0%
3oxnA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.51 37.0 3.45e-01 75.8% 77.4%
2jugA01 1.10.10.1830 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Non-ribosomal peptide synthase, adenylation domain 0.50 28.0 3.25e-01 94.5% 83.6%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5032021 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.90 86.0 6.30e-01 100.0% 67.6%
5071301 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.89 85.0 6.61e-01 100.0% 81.7%
4930115 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.88 84.0 6.23e-01 100.0% 72.2%
5019928 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.86 81.0 5.33e-01 100.0% 42.4%
3949110 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.84 79.0 5.05e-01 100.0% 32.1%
4997331 4333.1.1.1 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain › Methylase_S 0.82 76.0 5.71e-01 100.0% 73.0%
5018196 4333.1.1.0 a+b complex topology › DNA methylase specificity domain › DNA methylase specificity domain › DNA methylase specificity domain 0.80 74.0 4.66e-01 100.0% 31.9%
4512685 4076.2.1.0 a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like 0.55 44.0 4.11e-01 87.9% 96.5%
None 0.52 33.0 2.28e-01 75.8% 18.7%