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amazon_plume_scaffold_4_prodigal-single.1__X__X__00004
Bact-Viramazon_plume_scaffold_4_prodigal-single.1__X__X__00004
Identity
- Kingdom:
- phage
Quality
65.1
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 936-1112
Domain cluster:
rep: SRR1747055_scaffold_2_prodigal-single.1__X__X__00342__D202-325
D2
medium
residues 45-199_501-544
Domain cluster:
representative
CATH (10)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3d31A02 | 2.40.50.140 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins | 0.64 | 18.0 | 3.51e-01 | 91.0% | 100.0% |
| 2zuvA02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.62 | 34.0 | 4.54e-01 | 82.4% | 100.0% |
| 7y9aA01 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.60 | 27.0 | 3.90e-01 | 87.9% | 94.3% |
| 1f97A02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.56 | 28.0 | 3.65e-01 | 94.0% | 85.7% |
| 5zi7A01 | 2.60.40.1730 | Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain | 0.55 | 32.0 | 3.38e-01 | 94.0% | 58.9% |
| 4b3fX02 | 2.40.30.270 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › | 0.54 | 26.0 | 3.60e-01 | 92.0% | 91.8% |
| 2y7lA02 | 2.60.40.2430 | Mainly Beta › Sandwich › Immunoglobulin-like › Agglutinin-like protein, N-terminal domain, N2 subdomain | 0.53 | 32.0 | 3.60e-01 | 82.4% | 77.5% |
| 4p0dA02 | 2.60.40.740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.52 | 35.0 | 3.75e-01 | 94.0% | 77.6% |
| 4wz9A01 | 2.60.40.1730 | Mainly Beta › Sandwich › Immunoglobulin-like › tricorn interacting facor f3 domain | 0.52 | 35.0 | 3.44e-01 | 96.0% | 61.7% |
| 4fx5A01 | 2.60.40.3670 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.52 | 27.0 | 3.16e-01 | 93.0% | 66.9% |
D3
medium
residues 200-336_471-500
D4
medium
residues 382-470
D5
medium
residues 634-697
Domain cluster:
representative
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3l9rA01 | 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 | 0.66 | 53.0 | 3.92e-01 | 90.6% | 77.7% |
| 2mhgA00 | 2.20.130.30 | Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › Protein of unknown function DUF2782 | 0.62 | 43.0 | 4.12e-01 | 73.4% | 72.0% |
| 3k1lA01 | 3.30.457.40 | Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › | 0.61 | 48.0 | 4.26e-01 | 85.9% | 65.2% |
| 3i8tA00 | 2.60.120.200 | Mainly Beta › Sandwich › Jelly Rolls › | 0.61 | 52.0 | 4.09e-01 | 96.9% | 65.0% |
| 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 | 0.61 | 43.0 | 3.33e-01 | 76.6% | 98.0% |
| 2w7qB00 | 2.50.20.10 | Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX | 0.60 | 48.0 | 3.46e-01 | 87.5% | 85.0% |
| 4g59B00 | 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 | 0.59 | 45.0 | 3.52e-01 | 89.1% | 80.4% |
| 4dsdA00 | 3.40.1420.30 | Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › | 0.59 | 49.0 | 3.98e-01 | 93.8% | 79.4% |
| 5dzeA00 | 2.60.120.200 | Mainly Beta › Sandwich › Jelly Rolls › | 0.59 | 50.0 | 3.62e-01 | 98.4% | 46.2% |
| 1zo0A00 | 3.40.630.60 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › | 0.58 | 48.0 | 3.89e-01 | 93.8% | 85.7% |
| 3hbkA00 | 2.60.120.560 | Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 | 0.57 | 48.0 | 3.38e-01 | 98.4% | 55.4% |
| 3tfzB00 | 3.30.530.20 | Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain | 0.55 | 42.0 | 3.23e-01 | 87.5% | 37.0% |
| 1vkdA00 | 2.115.10.20 | Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 | 0.55 | 46.0 | 2.99e-01 | 98.4% | 59.2% |
| 1jofA00 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.55 | 44.0 | 2.90e-01 | 100.0% | 53.7% |
| 1yqfB00 | 3.10.280.10 | Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein | 0.55 | 45.0 | 3.44e-01 | 98.4% | 64.4% |
| 1sgoA01 | 3.30.2280.10 | Alpha Beta › 2-Layer Sandwich › copper amine oxidase-like fold › Hypothetical protein (hspc210) | 0.54 | 42.0 | 3.58e-01 | 89.1% | 51.9% |
| 2lmeA00 | 3.30.1300.30 | Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like | 0.53 | 38.0 | 3.34e-01 | 79.7% | 56.2% |
| 2hzmA02 | 2.20.140.20 | Mainly Beta › Single Sheet › q64v53_bacfr protein fold › | 0.51 | 35.0 | 3.29e-01 | 75.0% | 72.9% |
| 3gjyA00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.51 | 44.0 | 2.91e-01 | 100.0% | 45.2% |
ECOD (24)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3651990 | 330.1.1.0 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like | 0.63 | 44.0 | 4.59e-01 | 73.4% | 94.8% |
| 3446029 | 859.1.1.1 ↗ | a+b two layers › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › HORMA | 0.62 | 54.0 | 4.13e-01 | 100.0% | 49.0% |
| 3394354 | 243.6.1.4 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › Pre-PUA | 0.61 | 47.0 | 4.05e-01 | 82.8% | 81.0% |
| 150881 | 233.1.1.0 ↗ | a+b two layers › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC antigen-recognition domain | 0.61 | 43.0 | 3.33e-01 | 76.6% | 98.0% |
| 3998439 | 243.6.1.4 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › Pre-PUA | 0.61 | 46.0 | 4.11e-01 | 84.4% | 82.1% |
| 3927330 | 243.6.1.0 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain | 0.60 | 46.0 | 4.20e-01 | 82.8% | 89.4% |
| 3511988 | 243.6.1.4 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › Pre-PUA | 0.60 | 46.0 | 4.16e-01 | 84.4% | 88.9% |
| 3480412 | 243.6.1.0 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain | 0.60 | 45.0 | 4.07e-01 | 82.8% | 90.0% |
| 3838381 | 2004.1.1.308 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 | 0.59 | 49.0 | 3.18e-01 | 98.4% | 43.4% |
| 4489441 | 236.1.1.12 ↗ | beta barrels › GroES-like › GroES-related › Alcohol dehydrogenase-like, N-terminal domain › KR | 0.57 | 43.0 | 2.60e-01 | 81.2% | 18.6% |
| 4165617 | 865.1.1.0 ↗ | beta complex topology › PheT/TilS domain › PheT/TilS domain › PheT/TilS domain | 0.56 | 47.0 | 3.85e-01 | 95.3% | 92.8% |
| 3896335 | 5.1.4.1 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 | 0.56 | 46.0 | 2.99e-01 | 100.0% | 64.2% |
| 3935989 | 5.1.4.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed | 0.56 | 47.0 | 3.00e-01 | 100.0% | 56.6% |
| 3787121 | 241.15.1.0 ↗ | a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain | 0.55 | 46.0 | 3.84e-01 | 98.4% | 91.2% |
| 3592181 | 220.1.1.74 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H | 0.55 | 47.0 | 3.71e-01 | 95.3% | 65.2% |
| 3268583 | 243.6.1.4 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › Pre-PUA | 0.55 | 42.0 | 3.92e-01 | 85.9% | 90.6% |
| 5039633 | 243.3.1.0 ↗ | a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin | 0.55 | 38.0 | 3.64e-01 | 76.6% | 62.2% |
| 3244141 | 5.1.4.320 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_LRRK2 | 0.55 | 46.0 | 2.91e-01 | 98.4% | 54.7% |
| 5018904 | 71.1.1.8 ↗ | beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolA_like | 0.53 | 42.0 | 3.06e-01 | 90.6% | 32.8% |
| 4970384 | 243.6.1.9 ↗ | a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain › TGT_C2 | 0.53 | 42.0 | 3.89e-01 | 90.6% | 100.0% |
| 1031143 | 6043.1.1.3 ↗ | a+b two layers › yfeY-like › yfeY-like › yfeY-like › CAP_assoc_N | 0.51 | 33.0 | 3.25e-01 | 73.4% | 59.5% |
| 3929759 | 2007.1.1.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like | 0.51 | 39.0 | 2.85e-01 | 89.1% | 40.5% |
| 3782340 | 330.1.1.0 ↗ | a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like | 0.50 | 36.0 | 3.23e-01 | 75.0% | 61.1% |
| 3824346 | 4.1.1.0 ↗ | beta barrels › SH3 › SH3 › SH3 | 0.50 | 38.0 | 3.57e-01 | 84.4% | 70.0% |
D6
medium
residues 719-810
D7
medium
residues 867-935
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2lfuA02 | 2.40.160.90 | Mainly Beta › Beta Barrel › Porin › | 0.65 | 42.0 | 3.40e-01 | 81.2% | 34.9% |
| 3sreA00 | 2.120.10.30 | Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain | 0.63 | 48.0 | 3.12e-01 | 88.4% | 17.6% |
| 2x45A00 | 2.40.128.20 | Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain | 0.62 | 39.0 | 3.11e-01 | 76.8% | 29.9% |
| 7qi3A01 | 3.30.2140.20 | Alpha Beta › 2-Layer Sandwich › Arylamine N-acetyltransferase fold › | 0.62 | 55.0 | 3.59e-01 | 100.0% | 22.1% |
| 6v04A01 | 3.30.530.20 | Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain | 0.60 | 42.0 | 3.42e-01 | 88.4% | 39.4% |
| 3juuA00 | 2.60.120.200 | Mainly Beta › Sandwich › Jelly Rolls › | 0.59 | 48.0 | 3.21e-01 | 88.4% | 26.9% |
| 4kghA00 | 3.15.10.10 | Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 | 0.58 | 47.0 | 3.43e-01 | 89.9% | 44.0% |
| 3bwsA02 | 2.130.10.10 | Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase | 0.57 | 42.0 | 2.75e-01 | 85.5% | 17.0% |
| 1f0cA02 | 2.30.39.10 | Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 | 0.56 | 32.0 | 2.75e-01 | 78.3% | 32.2% |
| 3j7aV00 | 2.40.50.1000 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.56 | 40.0 | 3.09e-01 | 73.9% | 54.8% |
| 4ep4A00 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.56 | 35.0 | 2.66e-01 | 78.3% | 24.7% |
| 4oocA00 | 3.10.129.110 | Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Polyketide synthase dehydratase | 0.55 | 41.0 | 2.81e-01 | 82.6% | 36.9% |
| 4mlgG00 | 2.115.10.20 | Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 | 0.54 | 42.0 | 2.82e-01 | 91.3% | 27.8% |
| 1ultB01 | 3.40.50.12780 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain | 0.53 | 42.0 | 2.75e-01 | 98.6% | 92.9% |
| 3da8B00 | 3.40.50.170 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Formyl transferase, N-terminal domain | 0.52 | 40.0 | 2.90e-01 | 85.5% | 67.8% |
| 6grrA03 | 3.10.450.40 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.51 | 40.0 | 3.55e-01 | 88.4% | 58.5% |
| 2o3oA02 | 3.30.310.160 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › YycH protein, domain 2 | 0.51 | 38.0 | 3.19e-01 | 84.1% | 46.7% |
| 5hdwA00 | 2.60.40.1470 | Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain | 0.50 | 39.0 | 3.20e-01 | 85.5% | 71.0% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3540014 | 243.1.1.40 ↗ | a+b two layers › Cystatin-like › NTF2-like › NTF2-like › NXF_NTF2 | 0.63 | 40.0 | 3.27e-01 | 84.1% | 33.8% |
| 148788 | 5.1.3.8 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Arylesterase | 0.63 | 48.0 | 3.12e-01 | 88.4% | 17.6% |
| 3695635 | 243.3.1.0 ↗ | a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin | 0.61 | 44.0 | 4.04e-01 | 85.5% | 58.9% |
| 3925922 | 2484.1.1.0 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like | 0.60 | 44.0 | 3.25e-01 | 78.3% | 30.0% |
| 3243301 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.58 | 45.0 | 2.86e-01 | 85.5% | 16.4% |
| 3229304 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.58 | 40.0 | 2.56e-01 | 75.4% | 12.9% |
| 4012657 | 5.1.3.0 ↗ | beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed | 0.56 | 45.0 | 2.82e-01 | 88.4% | 15.4% |
| 4953417 | 7089.1.1.0 ↗ | a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD | 0.56 | 42.0 | 4.20e-01 | 85.5% | 77.1% |
| 5018650 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.53 | 39.0 | 4.15e-01 | 82.6% | 100.0% |
| 4976903 | 2004.1.1.211 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › CLP1_P | 0.53 | 42.0 | 2.99e-01 | 87.0% | 34.8% |
| 3580089 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.52 | 35.0 | 3.00e-01 | 78.3% | 42.7% |
| 4990934 | 2.1.1.15 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon | 0.51 | 41.0 | 3.34e-01 | 88.4% | 73.3% |
| 4952370 | 881.1.1.0 ↗ | a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like | 0.50 | 39.0 | 3.07e-01 | 85.5% | 78.7% |