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SRR1747030_scaffold_3_prodigal-single.1__X__X__00140

Bact-Vir

SRR1747030_scaffold_3_prodigal-single.1__X__X__00140

Identity

Kingdom:
phage

Quality

74.1 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 3-82
PDB
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4csbA00 2.40.128.480 Mainly Beta › Beta Barrel › Lipocalin › Rhodococcus equi virulence-associated protein 0.65 45.0 4.02e-01 72.5% 78.8%
2iafA00 3.30.1330.90 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › D-3-phosphoglycerate dehydrogenase; domain 3 0.64 54.0 4.52e-01 93.8% 97.9%
1zylA01 3.30.200.70 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.63 47.0 4.99e-01 81.2% 95.7%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 40.0 4.34e-01 81.2% 78.8%
3brcA02 3.40.50.10150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › B12-dependent dehydatase associated subunit 0.61 48.0 4.27e-01 87.5% 90.8%
5ih0A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 47.0 4.51e-01 86.3% 98.9%
2hjjA00 3.30.160.130 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › ykff protein like domains 0.59 38.0 4.17e-01 92.5% 80.3%
3lzhA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.59 44.0 4.30e-01 81.2% 98.9%
1uyjA01 3.30.360.60 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › 0.58 43.0 4.32e-01 81.2% 89.0%
1t82A00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.58 44.0 3.80e-01 87.5% 96.5%
6eotD01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.57 47.0 2.98e-01 97.5% 41.9%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.57 39.0 3.75e-01 82.5% 62.2%
5ighA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.57 44.0 4.35e-01 86.3% 100.0%
1ylxA00 3.30.70.1480 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GK1464-like 0.57 50.0 4.68e-01 100.0% 96.0%
1w94A00 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.56 47.0 3.84e-01 92.5% 91.6%
2e1bA02 3.30.980.10 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › Threonyl-trna Synthetase; Chain A, domain 2 0.56 41.0 3.58e-01 80.0% 98.4%
4htgA03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.55 46.0 4.66e-01 93.8% 96.2%
3a9gA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.55 48.0 3.20e-01 98.8% 32.8%
1plqA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.55 45.0 3.24e-01 92.5% 95.7%
5z1gB01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.54 46.0 3.43e-01 93.8% 89.7%
1eerC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 41.0 3.84e-01 81.2% 88.7%
3c6kA01 3.30.160.110 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Sirohaem synthase, central domain 0.54 41.0 3.94e-01 83.7% 83.0%
2kgtA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.53 35.0 3.67e-01 70.0% 75.0%
3tf8B00 3.90.1520.10 Alpha Beta › Alpha-Beta Complex › H-NOX domain › H-NOX domain 0.53 40.0 3.09e-01 81.2% 79.9%
5tvfD00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.53 45.0 3.22e-01 98.8% 35.6%
2i0rA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 45.0 3.00e-01 97.5% 36.9%
6yfiB01 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.53 40.0 3.43e-01 82.5% 99.3%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 2.91e-01 85.0% 84.3%
1sh8B00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.52 44.0 3.74e-01 100.0% 95.3%
4ns4A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 37.0 2.59e-01 76.2% 70.5%
6p0wA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 39.0 3.29e-01 81.2% 72.6%
4huzA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 38.0 3.12e-01 80.0% 43.0%
2vneA01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.51 40.0 3.17e-01 85.0% 60.1%
2af5A02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.51 39.0 3.26e-01 93.8% 47.8%
1t4lB00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 38.0 3.68e-01 80.0% 75.6%
ECOD (63)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031833 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.75 53.0 5.95e-01 96.2% 100.0%
4946505 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.72 56.0 5.98e-01 92.5% 95.7%
3973606 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.69 46.0 5.33e-01 81.2% 100.0%
4946504 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.68 53.0 5.63e-01 96.2% 97.1%
4953814 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.67 46.0 5.06e-01 93.8% 96.7%
4946507 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.67 54.0 5.57e-01 97.5% 94.7%
3286426 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.66 50.0 5.13e-01 96.2% 86.7%
3615642 512.1.1.0 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.65 48.0 5.23e-01 87.5% 98.5%
3827447 844.1.1.2 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.65 44.0 3.33e-01 71.2% 42.6%
336254 7504.1.1.4 a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › HcgB 0.63 48.0 3.93e-01 82.5% 70.3%
3939755 227.1.1.0 a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.63 44.0 3.62e-01 73.8% 67.6%
5003221 241.15.1.0 a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain 0.60 50.0 4.48e-01 92.5% 93.9%
5018923 809.2.1.0 a+b two layers › BLIP-like › BT0923-like › BT0923-like 0.60 44.0 4.52e-01 90.0% 84.0%
4944706 206.1.1.10 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Choline_kinase 0.59 46.0 3.24e-01 85.0% 35.6%
4958069 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.59 47.0 3.19e-01 88.7% 32.4%
3945586 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.59 44.0 3.04e-01 81.2% 31.2%
5830 330.7.1.1 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › DUF905 0.59 38.0 4.17e-01 92.5% 80.3%
1906715 7504.1.1.4 a/b three-layered sandwiches › ITPase-like › ITPase-like › ITPase-like › HcgB 0.59 46.0 3.81e-01 87.5% 69.4%
3702817 227.1.1.0 a+b two layers › DNA clamp › DNA clamp › DNA clamp 0.59 44.0 3.68e-01 78.8% 64.9%
3611339 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.58 42.0 4.14e-01 75.0% 72.9%
2582168 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.58 47.0 3.75e-01 87.5% 83.1%
3964724 3675.1.1.1 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.58 42.0 3.42e-01 95.0% 39.4%
5079230 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.58 46.0 4.31e-01 88.7% 89.5%
3770717 5.1.4.12 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.58 51.0 3.38e-01 98.8% 44.1%
5017154 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.58 47.0 3.93e-01 87.5% 79.3%
None 0.58 48.0 3.16e-01 93.8% 24.7%
2982475 222.1.1.6 a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › YiiD_C 0.58 45.0 3.78e-01 88.7% 96.7%
2755883 331.19.1.1 a+b two layers › TBP-like › Toxin RnlA N-terminal domains › Toxin RnlA N-terminal domains › RnlA_toxin 0.57 40.0 3.90e-01 93.8% 64.1%
4959306 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.57 46.0 3.07e-01 90.0% 24.2%
4997345 3435.1.1.0 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.57 47.0 4.15e-01 95.0% 88.0%
4931123 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 0.56 42.0 4.30e-01 86.3% 86.7%
4980820 844.1.1.2 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.56 46.0 3.48e-01 87.5% 41.1%
3538579 5.1.5.135 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Sema 0.56 47.0 2.98e-01 98.8% 35.8%
3962048 227.1.1.15 a+b two layers › DNA clamp › DNA clamp › DNA clamp › PF26035 0.56 40.0 3.78e-01 76.2% 84.0%
4263663 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.55 47.0 3.76e-01 93.8% 82.5%
5006851 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 0.55 41.0 4.22e-01 87.5% 89.2%
3575357 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.55 45.0 3.00e-01 92.5% 23.3%
4991274 218.4.1.1 a+b two layers › Enolase-N/ribosomal protein › Dhaf4260 N-terminal domain › Dhaf4260 N-terminal domain › DUF4213 0.54 37.0 3.54e-01 71.2% 86.3%
5046573 844.1.1.2 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.54 43.0 3.41e-01 85.0% 51.9%
4334199 77.1.1.1 beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein › Lipoprotein_1 0.54 46.0 3.98e-01 95.0% 84.8%
4975453 844.1.1.2 beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › LOR 0.53 44.0 3.43e-01 88.7% 51.5%
4819450 110.1.1.5 alpha arrays › DEATH domain › DEATH domain › DEATH domain › CENP-N 0.53 43.0 3.71e-01 93.8% 66.9%
3210000 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.53 44.0 2.87e-01 97.5% 70.2%
2125196 2485.2.1.1 a+b three layers › Thioredoxin-like › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RTC_insert 0.53 43.0 4.07e-01 93.8% 79.8%
4332050 7506.1.1.1 a/b three-layered sandwiches › N-terminal domain of GerK3 germinant receptor › N-terminal domain of GerK3 germinant receptor › N-terminal domain of GerK3 germinant receptor › GerA 0.53 39.0 3.57e-01 80.0% 92.7%
3479661 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 42.0 3.83e-01 88.7% 89.1%
3940470 5.1.4.320 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_LRRK2 0.52 44.0 2.92e-01 100.0% 46.1%
3260211 5.3.1.0 beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II 0.52 44.0 3.83e-01 93.8% 87.2%
4963533 2008.1.1.16 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat 0.52 42.0 3.71e-01 90.0% 80.8%
3476051 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 42.0 3.43e-01 87.5% 61.4%
3599873 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.52 42.0 3.11e-01 95.0% 61.2%
3606833 883.1.1.18 a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like › PF26545 0.51 43.0 3.39e-01 100.0% 92.5%
3265830 241.6.1.1 a+b two layers › Type III secretory system chaperone-like › Arp2/3 complex subunits › Arp2/3 complex subunits › P34-Arc 0.51 43.0 3.82e-01 91.3% 79.1%
3851509 5.1.4.12 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Sema 0.51 42.0 2.59e-01 91.3% 44.4%
5079486 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 42.0 3.59e-01 95.0% 87.1%
3645969 2484.1.1.120 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_4 0.51 39.0 2.98e-01 86.3% 90.5%
4969673 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 42.0 2.88e-01 93.8% 36.9%
4346250 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.50 43.0 3.65e-01 97.5% 81.4%
4355722 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.50 45.0 4.26e-01 100.0% 89.5%
3436557 220.4.1.8 beta barrels › PH domain-like › second barrel domain in viral glycoproteins › second barrel domain in viral glycoproteins › ZGRF1-like_N 0.50 39.0 4.01e-01 86.3% 88.0%
5056596 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.50 40.0 2.63e-01 86.3% 25.7%
3821886 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.50 33.0 3.46e-01 83.7% 73.3%
3923484 4291.1.1.1 beta barrels › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol-binding protein › Oxysterol_BP 0.50 43.0 2.88e-01 100.0% 52.8%
D2 high residues 84-146
PDB