Back to structures

JGI24723J26617_10000007_prodigal-single.1__X__X__00157

Bact-Vir

JGI24723J26617_10000007_prodigal-single.1__X__X__00157

Identity

Kingdom:
phage

Quality

94.6 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 3-79
PDB
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.69 48.0 4.25e-01 72.7% 83.5%
6wqbA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.67 48.0 3.89e-01 74.0% 46.4%
6zepA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.67 58.0 3.86e-01 100.0% 29.6%
3r96B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.66 47.0 3.63e-01 75.3% 45.7%
5gneA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.66 55.0 3.91e-01 100.0% 34.1%
8a9nA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.65 46.0 3.86e-01 74.0% 56.5%
4xpkA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.65 47.0 3.82e-01 75.3% 46.1%
3tzgA00 2.40.160.150 Mainly Beta › Beta Barrel › Porin › 0.64 45.0 3.19e-01 74.0% 97.1%
3owcB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 49.0 3.79e-01 83.1% 64.7%
3lv0A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.63 47.0 3.95e-01 81.8% 80.6%
1e8oD00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.62 40.0 4.05e-01 70.1% 65.8%
1yreC00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 49.0 3.71e-01 87.0% 72.5%
3he1A00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.61 44.0 3.52e-01 75.3% 68.7%
3qmfA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.60 47.0 3.92e-01 84.4% 76.9%
3pfeA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.60 51.0 3.54e-01 100.0% 37.7%
2q74A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.60 47.0 4.01e-01 85.7% 72.1%
2aj6A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 41.0 3.61e-01 71.4% 64.2%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.60 50.0 4.81e-01 94.8% 80.0%
4hkhA00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.60 42.0 3.37e-01 74.0% 75.2%
1z4eA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.59 46.0 3.69e-01 83.1% 74.0%
6em3x01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.59 49.0 3.67e-01 89.6% 55.7%
3b8bA01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.59 49.0 3.90e-01 92.2% 80.5%
4k2mA02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.59 51.0 4.37e-01 100.0% 91.6%
3f8dA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 41.0 3.53e-01 74.0% 82.9%
2cxhA01 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.58 48.0 3.71e-01 90.9% 66.1%
1fl2A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 40.0 3.45e-01 72.7% 73.4%
3it8D01 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 0.58 39.0 3.00e-01 70.1% 91.7%
4ri1C00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.58 46.0 3.51e-01 85.7% 58.3%
3lzwA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 40.0 3.47e-01 72.7% 74.8%
2zbwA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 40.0 3.46e-01 74.0% 74.8%
7e52A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 40.0 3.43e-01 74.0% 74.2%
1ecxB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.57 50.0 4.41e-01 100.0% 86.1%
3mgdB00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 42.0 3.40e-01 79.2% 73.7%
2qx2A00 3.10.570.10 Alpha Beta › Roll › sex pheromone staph- cam373 precursor fold › sex pheromone staph- cam373 precursor domain 0.57 42.0 2.84e-01 80.5% 85.8%
1w94A00 3.40.50.10480 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Brix domain 0.56 45.0 3.60e-01 87.0% 60.6%
3itjA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 39.0 3.35e-01 74.0% 73.0%
3netB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.54 44.0 4.09e-01 90.9% 79.6%
4cy8A03 3.40.30.120 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.54 45.0 3.66e-01 96.1% 50.6%
2dr1A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 46.0 3.91e-01 100.0% 71.1%
2yt4A03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 45.0 4.15e-01 96.1% 74.0%
3ihgA03 3.40.30.120 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.53 45.0 3.77e-01 96.1% 57.7%
2kr0A01 2.30.29.70 Mainly Beta › Roll › PH-domain like › Proteasomal ubiquitin receptor Rpn13/ADRM1 0.53 37.0 3.29e-01 72.7% 75.2%
3hdjA01 3.30.1780.10 Alpha Beta › 2-Layer Sandwich › ornithine cyclodeaminase, domain 1 › ornithine cyclodeaminase, domain 1 0.53 39.0 3.33e-01 80.5% 76.4%
3ke3A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 47.0 4.18e-01 100.0% 88.4%
3jvnA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 44.0 3.73e-01 89.6% 86.1%
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.53 43.0 4.05e-01 92.2% 82.5%
3zl8A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.52 43.0 3.21e-01 96.1% 83.6%
4f9zA02 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 44.0 3.94e-01 98.7% 69.0%
4nwyA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.52 44.0 3.84e-01 100.0% 62.5%
1gqeA03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.90e-01 83.1% 80.7%
2rloA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 36.0 3.10e-01 75.3% 73.4%
4pxeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 3.70e-01 92.2% 85.5%
7d27A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.50 41.0 3.10e-01 97.4% 90.0%
4dixA02 2.30.29.140 Mainly Beta › Roll › PH-domain like › 0.50 37.0 3.20e-01 79.2% 60.0%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.50 40.0 4.05e-01 93.5% 93.8%
1v9kA00 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.50 35.0 2.61e-01 75.3% 88.5%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3952442 213.1.1.25 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.70 49.0 4.09e-01 72.7% 56.9%
4263663 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.67 58.0 4.65e-01 98.7% 83.1%
4275894 213.1.1.25 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.65 47.0 3.57e-01 76.6% 32.8%
5025065 2004.1.1.100 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NTPase_1 0.63 47.0 3.61e-01 80.5% 41.7%
4935483 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 44.0 4.12e-01 74.0% 70.5%
3466857 2484.1.1.110 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.61 51.0 3.78e-01 94.8% 93.0%
4059727 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.61 50.0 3.90e-01 89.6% 64.2%
3815505 2484.1.1.110 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MULE 0.61 52.0 3.57e-01 94.8% 76.3%
4352101 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.61 49.0 3.97e-01 87.0% 82.1%
4954397 213.1.1.25 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.60 43.0 3.51e-01 75.3% 51.7%
3514660 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.60 47.0 4.56e-01 87.0% 75.6%
3408937 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.59 47.0 4.73e-01 89.6% 88.7%
5051496 213.1.1.29 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_9 0.58 44.0 3.81e-01 83.1% 79.2%
3935486 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.58 37.0 3.18e-01 70.1% 40.0%
3606615 241.10.1.0 a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain 0.57 47.0 4.53e-01 94.8% 94.4%
4990216 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.57 40.0 3.46e-01 72.7% 75.0%
4934569 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.57 44.0 3.57e-01 83.1% 77.9%
3386423 4018.1.1.2 a+b two layers › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › a+b domain in carbohydrate phosphatases › Inositol_P 0.57 47.0 3.90e-01 92.2% 79.3%
3510537 7502.1.1.2 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Brix 0.56 48.0 3.68e-01 93.5% 63.8%
4989543 298.2.1.1 a+b two layers › FwdE/GAPDH domain-like › FwdE-like › FwdE-like › FmdE 0.56 43.0 3.45e-01 83.1% 86.5%
4971247 331.10.2.0 a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.56 43.0 4.30e-01 93.5% 82.5%
3216768 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 47.0 4.32e-01 97.4% 89.5%
4969852 2004.1.1.100 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NTPase_1 0.55 45.0 3.46e-01 89.6% 46.7%
3934099 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.55 47.0 4.53e-01 100.0% 95.6%
3730099 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.55 46.0 4.73e-01 97.4% 100.0%
3479661 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 47.0 4.22e-01 96.1% 74.5%
4574497 213.1.1.27 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_7 0.55 42.0 3.65e-01 81.8% 73.3%
5073841 2003.1.2.1 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox 0.55 38.0 3.32e-01 74.0% 80.8%
4978331 331.10.2.0 a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.55 40.0 4.14e-01 88.3% 87.1%
3916641 633.23.1.1 alpha bundles › Bromodomain-like › Claudin › Claudin › PMP22_Claudin 0.55 49.0 3.63e-01 100.0% 72.0%
4978426 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.55 40.0 3.68e-01 79.2% 72.4%
3209694 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 44.0 4.14e-01 93.5% 72.0%
3876271 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.54 38.0 4.16e-01 88.3% 96.7%
3855773 316.1.1.36 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › MTPAP-like_central 0.54 45.0 3.43e-01 100.0% 38.9%
3549045 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.54 45.0 4.07e-01 94.8% 75.5%
4455006 2004.1.1.100 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › NTPase_1 0.54 44.0 3.52e-01 93.5% 66.5%
5056326 213.1.1.31 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.54 41.0 3.35e-01 83.1% 69.3%
5074419 512.1.1.1 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) › PmbA_TldD_1st 0.53 39.0 4.11e-01 92.2% 95.4%
3715871 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 46.0 3.95e-01 100.0% 65.6%
5046990 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.52 36.0 3.21e-01 74.0% 85.6%
3205989 73.1.1.0 beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain 0.51 44.0 3.59e-01 100.0% 82.5%
3233141 2485.1.1.0 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.51 42.0 3.48e-01 97.4% 70.3%
4031765 3535.1.1.1 a+b two layers › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › Sex pheromone staph-cAM373 › CamS 0.51 39.0 3.51e-01 87.0% 83.2%
3929548 220.1.1.11 beta barrels › PH domain-like › PH domain-like › PH domain-like › Rpn13_ADRM1_Pru 0.51 34.0 2.91e-01 70.1% 38.8%
3594674 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.51 44.0 3.71e-01 100.0% 63.7%
3923731 220.1.1.35 beta barrels › PH domain-like › PH domain-like › PH domain-like › IQ_SEC7_PH 0.51 38.0 3.00e-01 79.2% 51.2%
4062573 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.50 41.0 3.82e-01 92.2% 79.0%
3969059 213.1.1.31 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_10 0.50 40.0 3.32e-01 85.7% 83.7%