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NC_029004.1__YP_009217950.1__phiCT453B_54__00054
Bact-VirNC_029004.1__YP_009217950.1__phiCT453B_54__00054
Identity
- Accession:
- NC_029004 ↗
- Kingdom:
- phage
Quality
87.4
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
high
residues 1-49
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF09693.16 best | Phage_XkdX | 26.2 | 8.60e-06 | 77.5% | 82.5% |
CATH (27)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2xf5B00 | 1.10.10.1530 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.91 | 76.0 | 7.55e-01 | 89.8% | 86.0% |
| 2odmA00 | 1.10.287.750 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › SO2669-like | 0.74 | 64.0 | 5.49e-01 | 100.0% | 92.4% |
| 1x4tA01 | 1.10.287.660 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.71 | 49.0 | 4.67e-01 | 85.7% | 62.1% |
| 3bemB00 | 3.40.109.10 | Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › NADH Oxidase | 0.71 | 54.0 | 3.59e-01 | 85.7% | 40.7% |
| 4pxoA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.70 | 53.0 | 3.93e-01 | 83.7% | 38.2% |
| 4toiA02 | 1.10.287.610 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin | 0.70 | 50.0 | 5.13e-01 | 87.8% | 79.2% |
| 3nivC02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.68 | 52.0 | 3.88e-01 | 83.7% | 40.3% |
| 2oyyA00 | 6.10.80.10 | Special › Helix non-globular › DNA polymerase; domain 1 › Hexameric tyrosine-coordinated heme protein (HTHP) | 0.68 | 44.0 | 3.88e-01 | 73.5% | 45.1% |
| 3e3vA03 | 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 | 0.67 | 52.0 | 5.02e-01 | 87.8% | 94.6% |
| 3hwrA02 | 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 | 0.65 | 53.0 | 4.01e-01 | 95.9% | 53.5% |
| 2ld7B00 | 1.20.1160.11 | Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix | 0.65 | 46.0 | 4.00e-01 | 75.5% | 54.7% |
| 7xcnM01 | 1.10.1240.10 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain | 0.65 | 52.0 | 4.57e-01 | 91.8% | 87.2% |
| 3d5lA02 | 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 | 0.65 | 48.0 | 4.95e-01 | 83.7% | 100.0% |
| 1n0uA01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.64 | 53.0 | 3.50e-01 | 91.8% | 28.6% |
| 7s03A01 | 1.10.10.1450 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.63 | 49.0 | 4.88e-01 | 89.8% | 96.0% |
| 3ilkA02 | 1.10.8.590 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › | 0.63 | 44.0 | 3.96e-01 | 73.5% | 54.4% |
| 3u7eB01 | 3.40.50.1000 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like | 0.63 | 51.0 | 3.40e-01 | 91.8% | 30.1% |
| 1r71A01 | 1.10.10.730 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › KorB DNA-binding domain | 0.62 | 47.0 | 4.55e-01 | 85.7% | 85.7% |
| 2rcnA03 | 1.10.40.50 | Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Probable gtpase engc; domain 3 | 0.61 | 48.0 | 4.48e-01 | 87.8% | 82.3% |
| 3w6zA02 | 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 | 51.0 | 3.85e-01 | 93.9% | 71.1% |
| 1l5jA01 | 1.25.40.310 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Aconitate B, HEAT-like domain | 0.61 | 48.0 | 3.44e-01 | 91.8% | 49.1% |
| 3d5lB01 | 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 | 0.61 | 46.0 | 3.80e-01 | 89.8% | 44.1% |
| 4z7xB00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.60 | 48.0 | 3.23e-01 | 93.9% | 38.5% |
| 2q1zD01 | 1.10.10.1320 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Anti-sigma factor, zinc-finger domain | 0.59 | 48.0 | 4.14e-01 | 100.0% | 55.7% |
| 1yxrA01 | 1.20.58.80 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit | 0.57 | 47.0 | 4.24e-01 | 100.0% | 94.6% |
| 6hxpA01 | 1.10.230.10 | Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 | 0.56 | 48.0 | 3.92e-01 | 100.0% | 80.8% |
| 2cw7A04 | 1.10.8.1330 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Intein homing endonuclease, domain III | 0.56 | 37.0 | 3.69e-01 | 79.6% | 64.2% |
ECOD (23)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4032841 | 3151.1.1.2 ↗ | alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX | 0.99 | 74.0 | 7.71e-01 | 77.6% | 84.4% |
| 3588564 | 3151.1.1.2 ↗ | alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX | 0.98 | 73.0 | 8.08e-01 | 77.6% | 95.0% |
| 397561 | 3151.1.1.1 ↗ | alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1_GP23-1 | 0.91 | 76.0 | 7.55e-01 | 89.8% | 86.0% |
| 3440587 | 109.4.1.1262 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_long | 0.81 | 71.0 | 4.80e-01 | 98.0% | 31.2% |
| 4381851 | 3151.1.1.2 ↗ | alpha arrays › SPP1 phage GP23.1 › SPP1 phage GP23.1 › SPP1 phage GP23.1 › Phage_XkdX | 0.79 | 57.0 | 5.97e-01 | 77.6% | 93.3% |
| 3416035 | 104.1.1.0 ↗ | alpha duplicates or obligate multimers › TFIIA, alpha-helical domain › TFIIA, alpha-helical domain › TFIIA, alpha-helical domain | 0.77 | 69.0 | 6.69e-01 | 100.0% | 100.0% |
| 3791357 | 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 | 0.75 | 57.0 | 3.89e-01 | 85.7% | 24.2% |
| 4247950 | 4994.1.1.1 ↗ | alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like › DUF1507 | 0.75 | 64.0 | 5.23e-01 | 100.0% | 82.1% |
| 5075806 | 4995.1.1.1 ↗ | alpha arrays › Methionine synthase domain-like › Methionine synthase domain-like › Methionine synthase domain-like › B12-binding_2 | 0.72 | 58.0 | 4.94e-01 | 89.8% | 56.2% |
| 3957298 | 604.9.1.1 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p | 0.72 | 62.0 | 5.15e-01 | 100.0% | 71.1% |
| 3576327 | 6067.1.1.1 ↗ | alpha arrays › Dimerization domain of Sgt2 › Dimerization domain of Sgt2 › Dimerization domain of Sgt2 › SGTA_dimer | 0.72 | 49.0 | 4.20e-01 | 83.7% | 46.7% |
| 4524825 | 604.9.1.1 ↗ | alpha bundles › Spectrin repeat-like › Ribosomal protein S20 › Ribosomal protein S20 › Ribosomal_S20p | 0.71 | 61.0 | 4.97e-01 | 100.0% | 74.7% |
| 5043828 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.71 | 61.0 | 3.56e-01 | 100.0% | 15.5% |
| 5042947 | 101.35.1.0 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX | 0.69 | 56.0 | 5.58e-01 | 91.8% | 90.0% |
| 4983993 | 101.1.3.0 ↗ | alpha arrays › HTH › HTH › tetra-helical, LuxR-like | 0.65 | 50.0 | 4.74e-01 | 87.8% | 83.3% |
| 3847014 | 3919.1.1.2 ↗ | alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN | 0.64 | 55.0 | 4.22e-01 | 98.0% | 85.2% |
| 5029951 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.64 | 51.0 | 4.80e-01 | 95.9% | 76.9% |
| 4322551 | 604.23.1.0 ↗ | alpha bundles › Spectrin repeat-like › Sbi complement-binding domain › Sbi complement-binding domain | 0.64 | 51.0 | 4.97e-01 | 93.9% | 92.7% |
| 4167208 | 604.15.1.0 ↗ | alpha bundles › Spectrin repeat-like › Efb C-domain-like › Efb C-domain-like | 0.63 | 50.0 | 4.79e-01 | 95.9% | 85.0% |
| 4167193 | 101.35.1.1 ↗ | alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH2 | 0.61 | 45.0 | 4.64e-01 | 87.8% | 97.8% |
| 3617137 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.61 | 52.0 | 5.02e-01 | 95.9% | 87.3% |
| 4470343 | 3919.1.1.2 ↗ | alpha duplicates or obligate multimers › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › N-terminal domain of COMMD9 › COMM_HN | 0.60 | 48.0 | 3.77e-01 | 95.9% | 83.3% |
| 3931961 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.55 | 44.0 | 4.45e-01 | 95.9% | 94.0% |