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NC_042128.1__YP_009624963.1__FDJ53_gp039__00113
Bact-VirNC_042128.1__YP_009624963.1__FDJ53_gp039__00113
Identity
- Accession:
- NC_042128 ↗
- Kingdom:
- phage
Quality
75.4
mean pLDDT
Taxonomy
TaxID: 1590550
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 8-81
Domain cluster:
representative
CATH (37)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1a41A02 | 1.20.120.380 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 | 0.69 | 51.0 | 4.72e-01 | 83.8% | 61.7% |
| 3fxdC00 | 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 | 39.0 | 4.68e-01 | 79.7% | 88.0% |
| 2hjmA01 | 1.20.120.460 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › protein pf1176 like | 0.66 | 49.0 | 4.74e-01 | 81.1% | 74.4% |
| 3hyuA00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.63 | 48.0 | 3.95e-01 | 83.8% | 88.7% |
| 1gcvB00 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.62 | 48.0 | 3.95e-01 | 83.8% | 91.2% |
| 3keyA01 | 1.10.10.1080 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Stn1, N-terminal wHTH domain | 0.61 | 50.0 | 4.81e-01 | 93.2% | 93.1% |
| 2qytA02 | 1.10.1040.10 | Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 | 0.61 | 44.0 | 4.04e-01 | 78.4% | 63.4% |
| 2kiwA01 | 1.10.150.130 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain | 0.60 | 41.0 | 3.96e-01 | 81.1% | 61.6% |
| 5jc3A02 | 1.20.1320.30 | Mainly Alpha › Up-down Bundle › phosphoenolpyruvate carboxylase, domain 3 › | 0.60 | 46.0 | 3.97e-01 | 86.5% | 64.3% |
| 1cqxA01 | 1.10.490.10 | Mainly Alpha › Orthogonal Bundle › Globin-like › Globins | 0.59 | 45.0 | 3.60e-01 | 81.1% | 81.3% |
| 2pkeA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.59 | 44.0 | 4.33e-01 | 78.4% | 91.0% |
| 2gxaE01 | 1.10.10.510 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Zinc finger, large T-antigen D1 domain | 0.59 | 45.0 | 4.56e-01 | 81.1% | 83.6% |
| 3txsC01 | 1.10.287.1060 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like | 0.59 | 37.0 | 3.74e-01 | 77.0% | 62.7% |
| 2d05A02 | 1.20.141.10 | Mainly Alpha › Up-down Bundle › Chitosanase, subunit A; domain 1 › Chitosanase, subunit A, domain 1 | 0.58 | 42.0 | 3.70e-01 | 77.0% | 54.1% |
| 4uqxA01 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.58 | 42.0 | 4.03e-01 | 98.6% | 64.0% |
| 1lk3A00 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.57 | 42.0 | 3.56e-01 | 81.1% | 49.3% |
| 7c1iA01 | 1.20.120.160 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain | 0.56 | 40.0 | 3.62e-01 | 74.3% | 86.0% |
| 2gw1A02 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.56 | 39.0 | 2.58e-01 | 100.0% | 15.3% |
| 1fafA00 | 1.10.287.110 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain | 0.56 | 36.0 | 3.59e-01 | 77.0% | 60.8% |
| 3f4mA00 | 1.20.1440.160 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like | 0.56 | 47.0 | 3.69e-01 | 98.6% | 44.2% |
| 2ib0A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.56 | 47.0 | 3.91e-01 | 94.6% | 88.1% |
| 1yxrA01 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.55 | 43.0 | 4.32e-01 | 90.5% | 83.8% |
| 2jbwA01 | 1.20.1440.110 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase | 0.55 | 47.0 | 4.32e-01 | 100.0% | 82.5% |
| 3nbxX03 | 1.20.58.1510 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.55 | 41.0 | 3.75e-01 | 81.1% | 82.2% |
| 3s6jE02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.54 | 41.0 | 4.25e-01 | 81.1% | 92.8% |
| 1z19A01 | 1.10.150.130 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain | 0.54 | 43.0 | 3.99e-01 | 100.0% | 67.0% |
| 3eslA01 | 1.20.58.2070 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.54 | 41.0 | 4.12e-01 | 94.6% | 81.3% |
| 3qxlA00 | 1.10.840.10 | Mainly Alpha › Orthogonal Bundle › Son of Sevenless (SoS) protein; Chain S, domain 2 › Ras guanine-nucleotide exchange factors catalytic domain | 0.54 | 44.0 | 3.13e-01 | 93.2% | 51.4% |
| 3lysA00 | 1.10.150.130 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Tyrosine recombinase, N-terminal domain | 0.53 | 44.0 | 3.98e-01 | 100.0% | 66.7% |
| 4hehA01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.53 | 46.0 | 4.44e-01 | 91.9% | 83.1% |
| 2fu2A00 | 1.20.1440.50 | Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Ta0600-like | 0.53 | 40.0 | 3.95e-01 | 81.1% | 79.5% |
| 2a9uA01 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.52 | 44.0 | 3.74e-01 | 94.6% | 57.1% |
| 3anwA01 | 1.20.58.1030 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.52 | 40.0 | 3.44e-01 | 81.1% | 60.2% |
| 4etrB00 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.51 | 42.0 | 3.56e-01 | 89.2% | 86.9% |
| 3bvoB01 | 1.10.287.110 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain | 0.51 | 39.0 | 3.57e-01 | 81.1% | 63.3% |
| 2n1rA00 | 1.10.150.90 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Immunodeficiency lentiviruses, gag gene matrix protein p17 | 0.51 | 42.0 | 3.62e-01 | 100.0% | 64.2% |
| 2xgsB01 | 1.25.40.10 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain | 0.50 | 37.0 | 3.75e-01 | 100.0% | 79.5% |
ECOD (48)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3632779 | 145.1.1.0 ↗ | alpha arrays › F-box domain › F-box domain › F-box domain | 0.74 | 57.0 | 4.67e-01 | 81.1% | 52.3% |
| 4974561 | 1075.5.1.8 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter › Polysacc_synt_3 | 0.69 | 47.0 | 3.19e-01 | 70.3% | 65.9% |
| 5051518 | 1075.5.1.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter | 0.68 | 49.0 | 3.25e-01 | 75.7% | 68.1% |
| 3971484 | 5063.1.1.2 ↗ | alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › MadL | 0.64 | 48.0 | 4.17e-01 | 79.7% | 57.4% |
| 3991144 | 101.11.1.1 ↗ | alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase | 0.64 | 49.0 | 4.61e-01 | 82.4% | 71.1% |
| 4436943 | 101.11.1.1 ↗ | alpha arrays › HTH › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › Polynucleotide phosphorylase/guanosine pentaphosphate synthase (PNPase/GPSI), domain 3 › PNPase | 0.63 | 47.0 | 4.62e-01 | 79.7% | 73.8% |
| 5031855 | 632.15.1.0 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Staphylococcal complement inhibitor (SCIN) › Staphylococcal complement inhibitor (SCIN) | 0.63 | 37.0 | 3.67e-01 | 77.0% | 56.2% |
| 5008560 | 4995.1.1.1 ↗ | alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 | 0.61 | 44.0 | 3.90e-01 | 75.7% | 57.1% |
| 4413769 | 2498.1.1.22 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › YbeY | 0.61 | 46.0 | 3.65e-01 | 82.4% | 83.7% |
| 3543076 | 4106.1.1.1 ↗ | few secondary structure elements › Zinc hairpin stack › Zinc hairpin stack › Zinc hairpin stack › DHHC | 0.60 | 45.0 | 3.32e-01 | 81.1% | 79.0% |
| 4292858 | 1197.1.1.1 ↗ | alpha bundles › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › G3P_acyltransf | 0.60 | 52.0 | 3.81e-01 | 100.0% | 74.3% |
| 3491418 | 192.8.1.0 ↗ | alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain | 0.59 | 37.0 | 3.72e-01 | 81.1% | 62.7% |
| 3767618 | 7015.1.1.0 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain | 0.59 | 45.0 | 3.77e-01 | 81.1% | 70.4% |
| 3556027 | 5086.1.1.0 ↗ | alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins | 0.59 | 37.0 | 3.60e-01 | 79.7% | 56.5% |
| 3855461 | 3922.1.1.0 ↗ | alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 | 0.59 | 37.0 | 3.58e-01 | 79.7% | 56.5% |
| 4784164 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.58 | 37.0 | 3.86e-01 | 79.7% | 68.6% |
| 3995294 | 1065.1.1.0 ↗ | alpha bundles › SPX domain › SPX domain › SPX domain | 0.58 | 49.0 | 4.14e-01 | 93.2% | 69.6% |
| 2323907 | 212.1.1.24 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Morc6_S5 | 0.58 | 44.0 | 3.14e-01 | 82.4% | 80.2% |
| 3487862 | 212.1.1.0 ↗ | a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like | 0.58 | 45.0 | 3.14e-01 | 83.8% | 76.7% |
| 3711833 | 7015.1.1.0 ↗ | alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain | 0.58 | 43.0 | 3.43e-01 | 82.4% | 51.5% |
| 3724761 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.57 | 42.0 | 4.35e-01 | 90.5% | 82.9% |
| 4179301 | 192.7.1.2 ↗ | alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm › Seryl_tRNA_N | 0.57 | 39.0 | 3.34e-01 | 79.7% | 47.3% |
| 5049840 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.56 | 35.0 | 3.55e-01 | 75.7% | 62.7% |
| 4628639 | 150.1.1.59 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Coat_F | 0.56 | 42.0 | 3.83e-01 | 78.4% | 67.4% |
| 3443112 | 150.3.1.33 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › DUF594 | 0.56 | 40.0 | 2.81e-01 | 77.0% | 57.6% |
| 5050356 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.56 | 35.0 | 3.60e-01 | 75.7% | 67.1% |
| 3534927 | 6155.1.1.1 ↗ | alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › MtN3_slv | 0.56 | 50.0 | 4.17e-01 | 98.6% | 66.4% |
| 3773235 | 604.12.1.1 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT | 0.55 | 43.0 | 4.05e-01 | 83.8% | 74.4% |
| 5007348 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.55 | 40.0 | 3.19e-01 | 85.1% | 37.3% |
| 3728767 | 109.4.1.356 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans | 0.55 | 49.0 | 2.98e-01 | 98.6% | 15.9% |
| 3788743 | 604.12.1.2 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 | 0.55 | 41.0 | 4.15e-01 | 81.1% | 84.0% |
| 5065764 | 601.4.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains | 0.55 | 38.0 | 3.46e-01 | 90.5% | 52.4% |
| 5044800 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.54 | 38.0 | 3.71e-01 | 81.1% | 67.5% |
| 4022819 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.54 | 45.0 | 3.48e-01 | 93.2% | 75.3% |
| 3727500 | 604.12.1.2 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Vta1 | 0.53 | 39.0 | 4.03e-01 | 79.7% | 82.9% |
| 4962504 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.53 | 38.0 | 3.82e-01 | 79.7% | 74.7% |
| 3346499 | 109.4.1.46 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › IBN_N | 0.52 | 43.0 | 3.60e-01 | 100.0% | 50.4% |
| 5046308 | 1075.5.1.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter | 0.52 | 42.0 | 3.02e-01 | 91.9% | 78.0% |
| 5050359 | 605.1.1.1 ↗ | alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA | 0.52 | 37.0 | 3.85e-01 | 78.4% | 78.6% |
| 5023828 | 159.1.1.1 ↗ | alpha bundles › all-alpha NTP pyrophosphatases › all-alpha NTP pyrophosphatases › Hypothetical protein AF_0060 › MazG | 0.52 | 40.0 | 3.87e-01 | 95.9% | 71.6% |
| 3976663 | 3812.1.1.1 ↗ | alpha bundles › Type III secretion protein YscE › Type III secretion protein YscE › Type III secretion protein YscE › T3SS_needle_E | 0.51 | 39.0 | 4.14e-01 | 81.1% | 95.4% |
| 3596500 | 109.3.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat | 0.51 | 45.0 | 3.12e-01 | 100.0% | 30.0% |
| 3507458 | 109.24.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Helical domain in dedicator of cytokinesis protein 9 › Helical domain in dedicator of cytokinesis protein 9 | 0.51 | 42.0 | 3.94e-01 | 98.6% | 74.4% |
| 4997516 | 7516.1.1.2 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 | 0.51 | 43.0 | 2.97e-01 | 100.0% | 44.1% |
| 4944849 | 1075.5.1.0 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Multidrug and toxic compound extrusion (MATE) transporter › Multidrug and toxic compound extrusion (MATE) transporter | 0.51 | 43.0 | 2.98e-01 | 98.6% | 64.3% |
| 3592817 | 650.1.1.1 ↗ | alpha bundles › Chaperone J-domain › Chaperone J-domain › Chaperone J-domain › DnaJ | 0.51 | 42.0 | 3.74e-01 | 93.2% | 63.6% |
| 4031434 | 603.1.1.0 ↗ | alpha bundles › STAT-like › t-snare proteins › t-snare proteins | 0.50 | 40.0 | 3.87e-01 | 89.2% | 85.9% |
| 3647808 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.50 | 44.0 | 3.82e-01 | 98.6% | 65.2% |
D2
high
residues 117-224
Domain cluster:
rep: DQ320509.1__ABD78793.1__X__00016__D7-102
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF10543.15 best | ORF6N | 69.1 | 4.50e-19 | 78.7% | 91.9% |
D3
high
residues 277-362
Domain cluster:
rep: MH727550.1__AYB69465.1__JUICEBOX_36__00036__D157-238
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF03374.20 best | ANT | 90.6 | 1.20e-25 | 100.0% | 76.8% |