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amazon_plume_scaffold_4_prodigal-single.1__X__X__00130
Bact-Viramazon_plume_scaffold_4_prodigal-single.1__X__X__00130
Identity
- Kingdom:
- phage
Quality
67.4
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
medium
residues 38-71
Domain cluster:
representative
CATH (51)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3mpxA02 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.76 | 59.0 | 4.40e-01 | 97.1% | 33.0% |
| 4e1pA00 | 3.30.60.230 | Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain | 0.75 | 57.0 | 5.16e-01 | 100.0% | 58.2% |
| 2vszB02 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.74 | 61.0 | 4.30e-01 | 100.0% | 29.1% |
| 1dbhA02 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.73 | 57.0 | 4.04e-01 | 100.0% | 27.3% |
| 2rp4A00 | 6.10.280.60 | Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain | 0.73 | 58.0 | 4.53e-01 | 88.2% | 47.9% |
| 2rdpA00 | 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 | 0.71 | 51.0 | 3.46e-01 | 82.4% | 85.0% |
| 5h20A00 | 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 | 0.70 | 50.0 | 3.62e-01 | 79.4% | 87.4% |
| 5je6A01 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.69 | 54.0 | 3.32e-01 | 94.1% | 16.7% |
| 4z32A01 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.69 | 55.0 | 4.17e-01 | 100.0% | 35.4% |
| 1qhoA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.68 | 51.0 | 2.88e-01 | 82.4% | 43.9% |
| 2l48A00 | 3.30.70.2030 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.68 | 55.0 | 4.29e-01 | 100.0% | 70.6% |
| 2v79A00 | 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 | 0.68 | 49.0 | 3.41e-01 | 79.4% | 52.2% |
| 5r0dB01 | 2.60.34.20 | Mainly Beta › Sandwich › Substrate Binding Domain Of DNAk; Chain A, domain 1 › | 0.68 | 55.0 | 3.70e-01 | 97.1% | 68.5% |
| 3ou2A00 | 3.40.50.150 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 | 0.66 | 49.0 | 3.08e-01 | 85.3% | 15.2% |
| 1upqA00 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.66 | 51.0 | 3.80e-01 | 100.0% | 32.7% |
| 4e1oA03 | 3.90.1150.10 | Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 | 0.65 | 55.0 | 4.02e-01 | 100.0% | 89.8% |
| 2mp1A00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.65 | 52.0 | 4.10e-01 | 100.0% | 41.6% |
| 4pk9A00 | 3.40.1090.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytosolic phospholipase A2 catalytic domain › Cytosolic phospholipase A2 catalytic domain | 0.64 | 52.0 | 3.00e-01 | 94.1% | 86.9% |
| 2jvfA00 | 3.30.1710.10 | Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein | 0.64 | 50.0 | 3.75e-01 | 91.2% | 70.2% |
| 4nlcA01 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.64 | 53.0 | 3.22e-01 | 100.0% | 76.0% |
| 3ihlB00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.64 | 50.0 | 3.10e-01 | 91.2% | 69.0% |
| 2v8qA01 | 3.30.310.80 | Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 | 0.63 | 48.0 | 3.66e-01 | 88.2% | 71.9% |
| 2jkgA00 | 3.30.450.30 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic | 0.63 | 50.0 | 3.21e-01 | 88.2% | 94.5% |
| 4esbA00 | 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 | 0.63 | 42.0 | 3.03e-01 | 94.1% | 23.3% |
| 4kyzA00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.62 | 49.0 | 3.33e-01 | 100.0% | 39.5% |
| 3icyA00 | 3.30.450.20 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain | 0.62 | 43.0 | 3.05e-01 | 76.5% | 22.0% |
| 4hcsA00 | 2.40.50.40 | Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › | 0.61 | 48.0 | 4.05e-01 | 100.0% | 47.8% |
| 5mmiU01 | 3.30.70.330 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain | 0.60 | 43.0 | 3.57e-01 | 94.1% | 75.6% |
| 5xuhA00 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.59 | 50.0 | 3.44e-01 | 100.0% | 29.6% |
| 2kgfA00 | 1.10.375.10 | Mainly Alpha › Orthogonal Bundle › Human Immunodeficiency Virus Type 1 Capsid Protein › Human Immunodeficiency Virus Type 1 Capsid Protein | 0.59 | 48.0 | 3.27e-01 | 100.0% | 92.1% |
| 2dgrA01 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.59 | 47.0 | 3.96e-01 | 100.0% | 97.0% |
| 4dzoA02 | 3.30.457.60 | Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › | 0.58 | 52.0 | 3.96e-01 | 100.0% | 49.4% |
| 3foeA02 | 3.30.1360.40 | Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › | 0.58 | 41.0 | 3.40e-01 | 76.5% | 39.1% |
| 1vx7000 | 2.30.170.20 | Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L24 | 0.58 | 41.0 | 3.54e-01 | 88.2% | 41.9% |
| 3uoxB01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.58 | 50.0 | 2.92e-01 | 100.0% | 14.6% |
| 3l9fA01 | 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 | 0.58 | 48.0 | 3.53e-01 | 91.2% | 94.4% |
| 5suvC00 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.58 | 48.0 | 3.33e-01 | 100.0% | 29.6% |
| 3gr0D01 | 3.30.70.1780 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.58 | 45.0 | 4.30e-01 | 88.2% | 73.2% |
| 7kfuC02 | 1.20.120.920 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain | 0.58 | 47.0 | 2.94e-01 | 100.0% | 27.0% |
| 3r0aA00 | 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 | 0.58 | 42.0 | 3.05e-01 | 91.2% | 75.0% |
| 3oqgA00 | 3.40.1440.50 | Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › | 0.57 | 41.0 | 2.70e-01 | 85.3% | 46.6% |
| 2bddA00 | 3.90.470.20 | Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain | 0.55 | 47.0 | 3.20e-01 | 100.0% | 28.3% |
| 1jg5A00 | 3.30.1410.10 | Alpha Beta › 2-Layer Sandwich › Gtp Cyclohydrolase I Feedback Regulatory Protein; Chain: K › GTP cyclohydrolase I feedback regulatory protein GFRP | 0.55 | 43.0 | 3.36e-01 | 94.1% | 59.0% |
| 1f02T00 | 4.10.820.10 | Few Secondary Structures › Irregular › Translocated Intimin Receptor; Chain T › Translocated intimin receptor, central domain | 0.54 | 46.0 | 3.72e-01 | 100.0% | 87.9% |
| 4euyA00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.53 | 41.0 | 3.21e-01 | 91.2% | 65.1% |
| 1c0gA03 | 3.90.640.10 | Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 | 0.53 | 42.0 | 3.13e-01 | 97.1% | 34.8% |
| 2cpqA01 | 3.30.1370.10 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 | 0.52 | 38.0 | 3.32e-01 | 91.2% | 96.9% |
| 1hbxA01 | 3.40.1810.10 | Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box | 0.52 | 41.0 | 3.39e-01 | 91.2% | 53.5% |
| 6lydA01 | 3.40.470.10 | Alpha Beta › 3-Layer(aba) Sandwich › Uracil-DNA Glycosylase, subunit E › Uracil-DNA glycosylase-like domain | 0.52 | 43.0 | 2.65e-01 | 100.0% | 55.9% |
| 1k8rB00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.52 | 41.0 | 3.20e-01 | 94.1% | 40.2% |
| 1ceeB00 | 3.90.810.10 | Alpha Beta › Alpha-Beta Complex › SerineThreonine-protein kinase PAK-alpha; Chain A › CRIB domain | 0.51 | 36.0 | 3.24e-01 | 91.2% | 49.2% |
ECOD (38)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3428945 | 7581.1.1.25 ↗ | a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › FAE1_CUT1_RppA, ACP_syn_III_C | 0.72 | 51.0 | 3.15e-01 | 76.5% | 15.2% |
| 3276162 | 267.1.1.3 ↗ | a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase | 0.72 | 52.0 | 3.18e-01 | 79.4% | 47.1% |
| 5060792 | 101.1.2.48 ↗ | alpha arrays › HTH › HTH › winged helix domain › PadR | 0.70 | 50.0 | 3.41e-01 | 76.5% | 89.5% |
| 3960610 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.70 | 55.0 | 3.35e-01 | 88.2% | 33.0% |
| 3773509 | 220.1.1.1 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH | 0.67 | 54.0 | 4.68e-01 | 100.0% | 58.3% |
| 3174658 | 220.1.1.1 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › PH | 0.66 | 51.0 | 4.02e-01 | 100.0% | 38.9% |
| 4301114 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.66 | 54.0 | 4.46e-01 | 97.1% | 89.2% |
| 3507234 | 220.1.1.22 ↗ | beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C | 0.66 | 52.0 | 3.85e-01 | 100.0% | 31.8% |
| 3388102 | 304.8.1.0 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like | 0.66 | 54.0 | 4.52e-01 | 100.0% | 92.3% |
| 3394690 | 101.1.2.309 ↗ | alpha arrays › HTH › HTH › winged helix domain › GPAT_C | 0.66 | 50.0 | 3.58e-01 | 97.1% | 29.0% |
| 3714022 | 304.24.1.3 ↗ | a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_III | 0.65 | 47.0 | 4.07e-01 | 85.3% | 78.3% |
| 3923920 | 148.1.1.8 ↗ | alpha arrays › Histone-like › Histone-related › Histone › TFIID_30kDa | 0.63 | 50.0 | 3.57e-01 | 100.0% | 29.5% |
| 3937632 | 859.1.1.0 ↗ | a+b two layers › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 › The spindle assembly checkpoint protein mad2 | 0.62 | 51.0 | 3.22e-01 | 91.2% | 29.1% |
| 4972476 | 242.1.1.0 ↗ | a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases | 0.62 | 46.0 | 3.57e-01 | 88.2% | 34.1% |
| 3289064 | 101.1.2.26 ↗ | alpha arrays › HTH › HTH › winged helix domain › HxlR | 0.62 | 52.0 | 3.35e-01 | 94.1% | 25.3% |
| 4327478 | 304.162.1.0 ↗ | a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain | 0.62 | 49.0 | 4.20e-01 | 100.0% | 89.2% |
| 3413711 | 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 | 0.62 | 53.0 | 4.34e-01 | 100.0% | 98.5% |
| 4043003 | 601.7.1.6 ↗ | alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase | 0.61 | 51.0 | 3.32e-01 | 100.0% | 23.5% |
| 3969097 | 4325.1.1.0 ↗ | mixed a+b and a/b › YegP-like › YegP-like › YegP-like | 0.61 | 53.0 | 4.67e-01 | 100.0% | 68.0% |
| 3602715 | 101.1.2.30 ↗ | alpha arrays › HTH › HTH › winged helix domain › TrmB | 0.61 | 52.0 | 3.51e-01 | 97.1% | 70.4% |
| 3989311 | 101.1.8.1 ↗ | alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase | 0.61 | 45.0 | 3.09e-01 | 82.4% | 25.4% |
| 3290058 | 101.1.2.26 ↗ | alpha arrays › HTH › HTH › winged helix domain › HxlR | 0.61 | 49.0 | 3.25e-01 | 94.1% | 26.2% |
| 4932062 | 101.1.2.26 ↗ | alpha arrays › HTH › HTH › winged helix domain › HxlR | 0.60 | 51.0 | 3.60e-01 | 94.1% | 41.0% |
| 4968695 | 3016.1.1.0 ↗ | a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases | 0.60 | 51.0 | 3.32e-01 | 97.1% | 56.9% |
| 5064508 | 101.1.2.275 ↗ | alpha arrays › HTH › HTH › winged helix domain › DUF1495 | 0.60 | 47.0 | 3.40e-01 | 88.2% | 94.0% |
| 3574069 | 604.12.1.62 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › DuoxA | 0.59 | 48.0 | 3.30e-01 | 94.1% | 32.8% |
| 2126757 | 170.2.1.1 ↗ | alpha bundles › Retrovirus capsid protein › Retrovirus capsid protein N-terminal domain › Retrovirus capsid protein N-terminal domain › Gag_p24 | 0.59 | 48.0 | 3.27e-01 | 100.0% | 92.1% |
| 3915000 | 327.11.2.20 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › BICC1_KH | 0.59 | 46.0 | 3.73e-01 | 91.2% | 87.1% |
| 4940222 | 304.8.1.2 ↗ | a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT | 0.59 | 41.0 | 3.66e-01 | 91.2% | 92.3% |
| 5011613 | 101.1.2.225 ↗ | alpha arrays › HTH › HTH › winged helix domain › F-93_WHD | 0.58 | 48.0 | 3.51e-01 | 97.1% | 71.6% |
| 4928248 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.57 | 48.0 | 3.21e-01 | 94.1% | 55.4% |
| 3453248 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.57 | 45.0 | 4.01e-01 | 97.1% | 90.9% |
| 4951754 | 3674.1.1.0 ↗ | a+b duplicates or obligate multimers › Borealin C-terminal dimerization domain › Borealin C-terminal dimerization domain › Borealin C-terminal dimerization domain | 0.56 | 43.0 | 3.37e-01 | 100.0% | 87.4% |
| 3300895 | 375.13.1.3 ↗ | few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › ubiquitin | 0.55 | 46.0 | 3.97e-01 | 97.1% | 63.6% |
| 5070538 | 3501.1.1.1 ↗ | a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 | 0.54 | 47.0 | 3.74e-01 | 100.0% | 95.7% |
| 3938900 | 3346.1.1.5 ↗ | a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › ODR4-like | 0.54 | 47.0 | 2.96e-01 | 100.0% | 33.5% |
| 3656669 | 207.1.1.245 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_6, LRR_At5g56370, DUF7885 | 0.52 | 43.0 | 2.35e-01 | 100.0% | 4.9% |
| 4172564 | 101.1.9.134 ↗ | alpha arrays › HTH › HTH › Putative DNA-binding domain › DUF2067 | 0.52 | 44.0 | 3.65e-01 | 97.1% | 85.0% |