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S2_012_000_R2_scaffold_20_prodigal-single.1__X__X__00026

Bact-Vir

S2_012_000_R2_scaffold_20_prodigal-single.1__X__X__00026

Identity

Kingdom:
phage

Quality

86.8 mean pLDDT

3D Structure

Domains

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

D1 medium residues 1-116
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24608.3 best PDDEXK_15 72.4 6.40e-20 96.5% 56.1%
D2 medium residues 117-174
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yweA04 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 51.0 4.19e-01 93.1% 51.8%
3hyiA01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.61 50.0 3.57e-01 96.6% 39.8%
2od4B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 50.0 4.46e-01 98.3% 88.8%
3dfeA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 49.0 4.50e-01 98.3% 82.9%
5ijgA01 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.58 46.0 3.28e-01 94.8% 83.1%
3c9gA01 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.58 46.0 3.77e-01 96.6% 80.2%
5suhA02 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.58 48.0 4.13e-01 100.0% 84.5%
2dt9A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 47.0 4.32e-01 96.6% 89.9%
2qmwA03 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 45.0 4.25e-01 93.1% 88.3%
5lf5A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 45.0 3.98e-01 91.4% 88.2%
6lxgA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 46.0 4.30e-01 91.4% 89.0%
3s1tA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.57 45.0 4.19e-01 94.8% 86.3%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.57 38.0 3.89e-01 96.6% 74.5%
3gr5A02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.56 45.0 4.38e-01 94.8% 95.6%
1b24A01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.56 45.0 3.97e-01 93.1% 73.7%
2dqlA00 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 0.56 42.0 3.48e-01 84.5% 72.2%
2l48A00 3.30.70.2030 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 45.0 4.07e-01 94.8% 71.8%
2pmeA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.56 44.0 2.85e-01 93.1% 75.9%
5yppA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.56 45.0 4.00e-01 94.8% 73.3%
2p92A00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.55 44.0 3.96e-01 98.3% 87.4%
2k3iA01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 43.0 3.99e-01 96.6% 92.9%
2anrA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.55 47.0 4.40e-01 100.0% 98.7%
3e54A00 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.55 43.0 3.36e-01 96.6% 45.3%
1vq8S00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.55 42.0 3.85e-01 86.2% 76.5%
3qx3B03 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.55 44.0 3.83e-01 94.8% 74.0%
1ybtB00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.54 44.0 3.31e-01 98.3% 45.9%
5mmiU01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 40.0 3.73e-01 86.2% 78.0%
1lq9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 43.0 3.69e-01 98.3% 75.9%
4p6qA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 42.0 3.93e-01 93.1% 84.6%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.54 42.0 3.89e-01 94.8% 82.1%
1k1gA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.54 43.0 3.50e-01 93.1% 84.4%
1s7hA01 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 43.0 3.97e-01 96.6% 87.5%
8gccA02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.53 43.0 3.87e-01 94.8% 83.7%
3hz6A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 43.0 2.93e-01 93.1% 85.4%
3tzyA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.53 43.0 4.20e-01 100.0% 90.0%
2d9oA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 43.0 3.79e-01 100.0% 77.0%
1vqyB01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 41.0 3.70e-01 94.8% 85.3%
4qmfB01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.53 40.0 3.62e-01 84.5% 91.5%
1v05A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 42.0 3.69e-01 94.8% 70.8%
2b4vA03 3.30.70.1970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 3.80e-01 100.0% 79.8%
1bm9A00 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 36.0 2.99e-01 75.9% 68.3%
4ctaA02 3.30.70.2860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 43.0 4.01e-01 98.3% 89.3%
2lfvA00 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.52 40.0 3.46e-01 91.4% 65.1%
3l7wA00 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 0.51 36.0 3.12e-01 77.6% 66.7%
1wjwA01 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.51 36.0 3.25e-01 75.9% 87.1%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.51 40.0 3.91e-01 94.8% 97.1%
1yyvB00 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 0.51 35.0 3.01e-01 77.6% 60.7%
1xt8A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.50 38.0 2.91e-01 86.2% 63.1%
1cl7I00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 38.0 3.47e-01 86.2% 90.2%
4hqeA00 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 0.50 34.0 2.91e-01 70.7% 61.9%
ECOD (53)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3486001 304.117.1.1 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in YebC › Ferredoxin-like domain in YebC › Transcrip_reg 0.62 52.0 4.83e-01 94.8% 89.3%
3706132 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 50.0 4.44e-01 93.1% 75.3%
5047839 304.3.1.0 a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.61 50.0 4.61e-01 96.6% 81.2%
3593495 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.60 50.0 4.36e-01 96.6% 73.7%
3218110 304.117.1.1 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in YebC › Ferredoxin-like domain in YebC › Transcrip_reg 0.60 50.0 4.67e-01 94.8% 89.3%
5078373 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 45.0 3.55e-01 81.0% 68.0%
4993130 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.60 47.0 4.38e-01 89.7% 81.3%
4987106 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 49.0 4.34e-01 100.0% 72.6%
172962 242.1.1.5 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.59 46.0 3.88e-01 89.7% 65.1%
4941685 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.59 47.0 4.53e-01 93.1% 92.9%
4034527 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 51.0 4.63e-01 98.3% 87.2%
4995222 304.24.1.0 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.58 44.0 4.14e-01 87.9% 92.0%
3701059 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.58 47.0 4.10e-01 94.8% 71.6%
3383298 304.24.1.0 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.58 44.0 4.14e-01 89.7% 80.0%
3793409 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.57 46.0 3.15e-01 93.1% 32.0%
3866975 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.57 47.0 4.46e-01 94.8% 100.0%
3586911 101.1.9.0 alpha arrays › HTH › HTH › Putative DNA-binding domain 0.57 41.0 3.61e-01 79.3% 71.6%
3616177 304.9.1.1 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.57 46.0 3.71e-01 93.1% 60.0%
3220963 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.57 47.0 3.39e-01 98.3% 71.1%
4538883 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 43.0 3.74e-01 86.2% 88.4%
3290652 306.2.1.0 a+b two layers › Glucose permease domain IIB-like › arginine repressor C terminal domain-related › C-terminal domain of arginine repressor 0.56 46.0 4.08e-01 94.8% 75.6%
164542 101.1.2.48 alpha arrays › HTH › HTH › winged helix domain › PadR 0.56 42.0 3.48e-01 84.5% 72.2%
5046352 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 46.0 3.92e-01 96.6% 59.0%
3386924 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.56 46.0 3.92e-01 96.6% 66.7%
3225101 304.44.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.56 44.0 3.59e-01 94.8% 56.8%
3473408 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.56 47.0 4.17e-01 96.6% 100.0%
169883 242.1.1.1 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_1 0.55 43.0 3.36e-01 96.6% 45.3%
3399051 389.1.1.0 few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.55 47.0 3.76e-01 100.0% 95.2%
3996296 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 44.0 3.66e-01 94.8% 57.4%
3603763 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.55 42.0 3.81e-01 91.4% 70.0%
5054879 304.1.1.1 a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.55 45.0 3.52e-01 100.0% 89.7%
4130677 304.162.1.1 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › CinA_KH 0.55 45.0 4.30e-01 94.8% 92.9%
3924002 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.54 41.0 3.97e-01 87.9% 100.0%
2600086 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.54 43.0 3.93e-01 94.8% 88.1%
4119221 327.16.1.3 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › Secretin_N 0.54 43.0 4.21e-01 94.8% 98.5%
3994612 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.53 43.0 4.02e-01 100.0% 92.5%
3590646 101.1.2.16 alpha arrays › HTH › HTH › winged helix domain › Rep3_N 0.53 37.0 2.93e-01 74.1% 68.8%
3617310 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.53 41.0 3.96e-01 96.6% 97.3%
3280205 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.53 43.0 3.82e-01 100.0% 83.2%
4938741 101.1.2.14 alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.52 36.0 2.86e-01 75.9% 73.6%
3963926 304.14.1.1 a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR 0.52 41.0 3.86e-01 94.8% 87.3%
4992822 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.52 41.0 3.75e-01 89.7% 80.0%
4959456 101.1.2.48 alpha arrays › HTH › HTH › winged helix domain › PadR 0.52 38.0 2.76e-01 79.3% 66.5%
4980881 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.52 41.0 3.78e-01 94.8% 85.9%
3521408 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 3.59e-01 94.8% 83.0%
4946524 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.52 35.0 2.93e-01 70.7% 56.4%
3260140 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.52 42.0 3.36e-01 93.1% 78.4%
5025451 101.1.2.143 alpha arrays › HTH › HTH › winged helix domain › HTH_34 0.51 34.0 2.90e-01 70.7% 55.5%
3894014 10.2.1.0 beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.51 43.0 3.21e-01 98.3% 68.3%
4983310 101.1.2.14 alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.51 34.0 2.97e-01 70.7% 71.0%
4991130 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.51 41.0 3.22e-01 91.4% 73.8%
4990535 305.2.1.2 a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › DUF2067 0.50 39.0 3.86e-01 94.8% 96.9%
3369497 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 38.0 2.94e-01 89.7% 86.7%