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amazon_plume_scaffold_4_prodigal-single.1__X__X__00190
Bact-Viramazon_plume_scaffold_4_prodigal-single.1__X__X__00190
Identity
- Kingdom:
- phage
Quality
86.1
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
medium
residues 50-157_192-249_295-332
Domain cluster:
representative
CATH (3)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1r44A00 | 3.30.1380.10 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › | 0.59 | 45.0 | 4.60e-01 | 78.4% | 98.0% |
| 4muqA02 | 3.30.1380.10 | Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › | 0.59 | 41.0 | 4.87e-01 | 76.5% | 100.0% |
| 6ldkA01 | 1.10.730.10 | Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 | 0.53 | 28.0 | 3.06e-01 | 89.2% | 59.9% |
ECOD (4)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5590 | 307.1.1.2 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15 | 0.59 | 45.0 | 4.60e-01 | 78.4% | 98.0% |
| 4010530 | 307.1.1.2 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15 | 0.58 | 43.0 | 4.73e-01 | 75.5% | 100.0% |
| 3961855 | 307.1.1.2 ↗ | a+b two layers › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Hedgehog/DD-peptidase › Peptidase_M15 | 0.58 | 46.0 | 4.66e-01 | 80.9% | 98.5% |
| 5057191 | 3861.1.1.1 ↗ | alpha bundles › Mitochondrial translocator protein (TSPO) › Mitochondrial translocator protein (TSPO) › Mitochondrial translocator protein (TSPO) › TspO_MBR | 0.51 | 31.0 | 3.43e-01 | 85.8% | 75.5% |
D2
medium
residues 368-438
Domain cluster:
representative
CATH (22)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3uk6A02 | 1.10.8.60 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.72 | 57.0 | 5.39e-01 | 90.1% | 72.3% |
| 2c9oB03 | 1.10.8.60 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.70 | 55.0 | 5.27e-01 | 90.1% | 72.3% |
| 2ffjA01 | 1.10.8.380 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Uncharacterised protein PF01937, DUF89, domain 1 | 0.68 | 49.0 | 5.33e-01 | 76.1% | 98.2% |
| 1lp1A00 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.67 | 47.0 | 5.19e-01 | 84.5% | 96.4% |
| 3o3mB01 | 1.20.1270.370 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › | 0.66 | 52.0 | 4.57e-01 | 84.5% | 58.3% |
| 3c8zA02 | 1.20.120.640 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases | 0.66 | 49.0 | 4.69e-01 | 80.3% | 68.7% |
| 5grqA00 | 1.10.8.810 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Daxx helical bundle domain | 0.64 | 49.0 | 4.61e-01 | 83.1% | 84.4% |
| 1xfiA02 | 1.20.1700.10 | Mainly Alpha › Up-down Bundle › AF1104-like › AF1104-like | 0.64 | 50.0 | 4.69e-01 | 85.9% | 85.6% |
| 4gmqA00 | 1.10.8.840 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ribosome-associated complex head domain | 0.60 | 43.0 | 4.00e-01 | 77.5% | 100.0% |
| 1lxlA00 | 1.10.437.10 | Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like | 0.59 | 51.0 | 3.57e-01 | 94.4% | 82.4% |
| 1or7B01 | 1.10.1740.10 | Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif | 0.58 | 49.0 | 4.56e-01 | 98.6% | 92.6% |
| 1a5tA03 | 1.20.272.10 | Mainly Alpha › Up-down Bundle › Zinc Finger, Delta Prime; domain 3 › | 0.57 | 44.0 | 3.81e-01 | 85.9% | 96.6% |
| 2x1dA02 | 1.10.10.2120 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.56 | 38.0 | 3.85e-01 | 71.8% | 95.9% |
| 2yukA00 | 1.10.30.10 | Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain | 0.56 | 44.0 | 4.09e-01 | 93.0% | 67.8% |
| 2pmrA00 | 1.20.1270.90 | Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like | 0.55 | 43.0 | 4.22e-01 | 85.9% | 96.1% |
| 3mvuA00 | 1.20.910.10 | Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like | 0.55 | 41.0 | 2.94e-01 | 81.7% | 49.1% |
| 2wtbA01 | 3.90.226.10 | Alpha Beta › Alpha-Beta Complex › 2-enoyl-CoA Hydratase; Chain A, domain 1 › 2-enoyl-CoA Hydratase; Chain A, domain 1 | 0.54 | 46.0 | 3.05e-01 | 95.8% | 45.7% |
| 6h5hA00 | 1.10.150.110 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like | 0.52 | 37.0 | 3.73e-01 | 74.6% | 85.9% |
| 2zt5A02 | 3.30.40.230 | Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › | 0.52 | 36.0 | 3.50e-01 | 74.6% | 75.0% |
| 4cqiA00 | 1.20.58.90 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.52 | 33.0 | 2.87e-01 | 100.0% | 43.0% |
| 4kjmB01 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.51 | 37.0 | 3.83e-01 | 80.3% | 92.1% |
| 4g1tA02 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.51 | 32.0 | 3.45e-01 | 76.1% | 73.8% |
ECOD (31)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4517001 | 632.3.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Phosphoprotein XD domain › Phosphoprotein XD domain | 0.74 | 50.0 | 5.81e-01 | 77.5% | 100.0% |
| 3519328 | 148.1.3.18 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › TIP49_C | 0.73 | 58.0 | 5.22e-01 | 90.1% | 63.2% |
| 3391169 | 103.4.1.25 ↗ | alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › PF27628 | 0.69 | 56.0 | 5.70e-01 | 88.7% | 100.0% |
| 3596625 | 148.1.3.0 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain | 0.62 | 46.0 | 4.66e-01 | 78.9% | 81.4% |
| 5060846 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.62 | 47.0 | 4.62e-01 | 81.7% | 89.3% |
| 5060253 | 632.23.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I | 0.62 | 45.0 | 4.68e-01 | 77.5% | 89.2% |
| 5014639 | 632.1.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain | 0.61 | 47.0 | 4.31e-01 | 88.7% | 96.0% |
| 4972342 | 4294.1.1.2 ↗ | few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › Trm112p | 0.61 | 45.0 | 3.24e-01 | 80.3% | 39.7% |
| 5069994 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.61 | 46.0 | 4.70e-01 | 84.5% | 92.9% |
| 4981741 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.61 | 44.0 | 4.64e-01 | 78.9% | 96.7% |
| 5059274 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.60 | 46.0 | 4.81e-01 | 85.9% | 95.4% |
| 3882597 | 4009.1.1.0 ↗ | alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins | 0.59 | 42.0 | 3.98e-01 | 77.5% | 82.2% |
| 3663702 | 143.1.1.5 ↗ | alpha arrays › PABP domain-like › PABC(PABP) domain › PABC(PABP) domain › VIN3_C | 0.59 | 45.0 | 4.53e-01 | 84.5% | 98.6% |
| 5060981 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.58 | 40.0 | 4.40e-01 | 74.6% | 92.7% |
| 5060021 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.58 | 43.0 | 4.43e-01 | 80.3% | 87.7% |
| 4941193 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.57 | 43.0 | 4.17e-01 | 84.5% | 83.5% |
| 5069402 | 632.23.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Helical linker domain in nicking endonuclease N.BspD6I › Helical linker domain in nicking endonuclease N.BspD6I | 0.57 | 43.0 | 4.32e-01 | 88.7% | 82.9% |
| 3394510 | 1128.1.1.0 ↗ | alpha bundles › LYR protein › LYR protein › LYR protein | 0.57 | 44.0 | 4.31e-01 | 87.3% | 85.0% |
| 3602612 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.57 | 42.0 | 4.23e-01 | 80.3% | 87.1% |
| 4982049 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.57 | 40.0 | 4.28e-01 | 76.1% | 96.4% |
| 5028218 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.57 | 41.0 | 4.27e-01 | 76.1% | 86.2% |
| 5060145 | 632.22.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats | 0.57 | 43.0 | 4.51e-01 | 87.3% | 93.8% |
| 5066226 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.56 | 41.0 | 4.21e-01 | 78.9% | 86.2% |
| 4652715 | 3831.1.1.0 ↗ | alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 | 0.56 | 42.0 | 3.75e-01 | 81.7% | 62.9% |
| 3530949 | 3291.1.1.231 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › PF27745 | 0.56 | 38.0 | 3.04e-01 | 70.4% | 86.0% |
| 3597591 | 1128.1.1.0 ↗ | alpha bundles › LYR protein › LYR protein › LYR protein | 0.56 | 41.0 | 4.16e-01 | 81.7% | 91.4% |
| 4981747 | 632.15.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) | 0.55 | 40.0 | 4.22e-01 | 78.9% | 92.3% |
| 4982047 | 632.11.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like | 0.55 | 42.0 | 4.30e-01 | 87.3% | 92.9% |
| 3604586 | 632.11.1.16 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like › PF27356 | 0.54 | 40.0 | 4.13e-01 | 81.7% | 89.2% |
| 139354 | 150.1.2.5 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Heme oxygenase/Ribonucleotide reductase › TENA_THI-4 | 0.53 | 41.0 | 2.99e-01 | 88.7% | 91.1% |
| 3534690 | 4030.1.1.2 ↗ | alpha bundles › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › alpha-helical domain in subunits of heterodimeric actin filament capping protein Capz › F-actin_cap_A | 0.52 | 38.0 | 4.20e-01 | 83.1% | 100.0% |