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NC_025455.1__YP_009103147.1__S-CBP2_0039__00039
Bact-VirNC_025455.1__YP_009103147.1__S-CBP2_0039__00039
Identity
- Accession:
- NC_025455 ↗
- Kingdom:
- phage
Quality
59.3
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Autographivirales›
Kembevirus›
Synechococcus_phage_S-CBP2
TaxID: 756277
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 524-620
D2
medium
residues 239-332
Domain cluster:
representative
CATH (12)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1jmwA00 | 1.20.120.30 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Aspartate receptor, ligand-binding domain | 0.62 | 46.0 | 3.99e-01 | 78.7% | 91.1% |
| 3nkuA00 | 1.10.357.170 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › | 0.60 | 44.0 | 3.61e-01 | 77.7% | 67.6% |
| 3c7jA02 | 1.20.120.530 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like | 0.60 | 41.0 | 3.54e-01 | 70.2% | 99.3% |
| 2pv4A00 | 1.10.3440.10 | Mainly Alpha › Orthogonal Bundle › Sama2622-like fold › Sama2622-like | 0.59 | 43.0 | 3.69e-01 | 74.5% | 76.6% |
| 1wu3I00 | 1.20.1250.10 | Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › | 0.58 | 48.0 | 4.02e-01 | 89.4% | 78.9% |
| 1gvfB00 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.56 | 40.0 | 2.92e-01 | 75.5% | 36.0% |
| 4p02B05 | 1.20.5.4520 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.55 | 31.0 | 3.11e-01 | 79.8% | 52.0% |
| 7zm7601 | 1.20.120.1200 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ | 0.54 | 36.0 | 3.08e-01 | 81.9% | 38.9% |
| 1o9nA00 | 3.90.1300.10 | Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain | 0.53 | 38.0 | 2.57e-01 | 76.6% | 56.1% |
| 1wcrA00 | 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 | 46.0 | 4.54e-01 | 98.9% | 100.0% |
| 3uarA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.52 | 34.0 | 3.27e-01 | 73.4% | 57.9% |
| 1f2eA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.51 | 32.0 | 3.16e-01 | 73.4% | 56.6% |
ECOD (20)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3944805 | 1075.3.1.1 ↗ | alpha bundles › Type II ABC exporter transmembrane domain fold › Type I ABC importer transmembrane domain fold › Type I ABC importer transmembrane domain fold › BPD_transp_1 | 0.75 | 66.0 | 4.96e-01 | 96.8% | 93.8% |
| 4986013 | 4994.1.1.0 ↗ | alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like | 0.71 | 55.0 | 5.79e-01 | 89.4% | 91.8% |
| 5079588 | 310.2.1.0 ↗ | a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF | 0.70 | 59.0 | 6.08e-01 | 93.6% | 95.6% |
| 4426031 | 193.1.1.2 ↗ | alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like › Nuf2 | 0.67 | 43.0 | 3.02e-01 | 79.8% | 22.2% |
| 3705250 | 708.1.1.0 ↗ | beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain | 0.62 | 41.0 | 3.38e-01 | 73.4% | 35.6% |
| 4115486 | 604.3.1.11 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 | 0.61 | 45.0 | 3.76e-01 | 77.7% | 49.7% |
| 5053508 | 2003.1.9.1 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF | 0.61 | 45.0 | 3.04e-01 | 79.8% | 22.8% |
| 3488092 | 5041.1.1.25 ↗ | extended segments › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › F1F0 ATP synthase subunit C › Myelin_PLP | 0.61 | 54.0 | 4.69e-01 | 94.7% | 89.6% |
| 3264876 | 604.12.1.42 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › DUF202 | 0.60 | 49.0 | 4.86e-01 | 89.4% | 89.0% |
| 3505493 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.59 | 53.0 | 4.86e-01 | 100.0% | 80.0% |
| 3499735 | 1203.1.2.0 ↗ | alpha bundles › Shroom domain 2 › Shroom domain 2 › Human SD2 | 0.58 | 53.0 | 4.36e-01 | 100.0% | 65.5% |
| 3454448 | 5073.1.2.7 ↗ | alpha bundles › Calcium ATPase transmembrane domain-related › Calcium ATPase transmembrane domain-related › Copper efflux ATPase transmembrane domain › PhoLip_ATPase_C | 0.57 | 50.0 | 3.76e-01 | 98.9% | 40.0% |
| 3817615 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.55 | 48.0 | 4.64e-01 | 94.7% | 94.3% |
| 5027312 | 604.6.1.0 ↗ | alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain | 0.55 | 46.0 | 4.46e-01 | 89.4% | 93.2% |
| 5017778 | 1076.1.1.1 ↗ | alpha bundles › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Intramembrane protease Rce1-related › Rce1-like | 0.55 | 47.0 | 3.44e-01 | 96.8% | 71.5% |
| 4878415 | 5001.1.1.1 ↗ | alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 | 0.54 | 47.0 | 3.75e-01 | 94.7% | 65.9% |
| 5019353 | 2498.1.1.10 ↗ | mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 | 0.53 | 38.0 | 2.91e-01 | 73.4% | 56.4% |
| 4026983 | 604.1.1.135 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › DUF155 | 0.51 | 42.0 | 3.25e-01 | 91.5% | 59.1% |
| 3482907 | 3291.1.1.0 ↗ | alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related | 0.51 | 46.0 | 4.30e-01 | 100.0% | 100.0% |
| 3710472 | 604.3.1.11 ↗ | alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 | 0.51 | 45.0 | 3.35e-01 | 100.0% | 70.8% |
D3
medium
residues 333-398
D4
medium
residues 399-506
D5
medium
residues 624-720
D6
medium
residues 743-875
Domain cluster:
rep: NC_073481.1__YP_010756090.1__QEJ66_gp08__00008__D21-190
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF18013.7 best | Phage_lysozyme2 | 46.8 | 5.00e-12 | 94.7% | 81.0% |
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3ct5A00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.84 | 78.0 | 7.30e-01 | 99.2% | 96.9% |
| 4qdnA00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.75 | 61.0 | 6.48e-01 | 98.5% | 96.6% |
| 3bkhA02 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.71 | 64.0 | 5.74e-01 | 97.7% | 97.3% |
| 6cfcA01 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.70 | 62.0 | 5.84e-01 | 96.2% | 96.3% |
| 1qsaA03 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.69 | 63.0 | 5.80e-01 | 99.2% | 90.8% |
| 4hjzA00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.69 | 63.0 | 5.66e-01 | 100.0% | 91.8% |
| 3fi7A01 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.68 | 59.0 | 5.96e-01 | 99.2% | 93.8% |
| 4yibA01 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.68 | 62.0 | 5.88e-01 | 99.2% | 95.6% |
| 1iizA00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.67 | 55.0 | 5.80e-01 | 99.2% | 96.7% |
| 7p2yC03 | 1.20.150.20 | Mainly Alpha › Up-down Bundle › Lysin › ATP synthase alpha/beta chain, C-terminal domain | 0.67 | 42.0 | 4.32e-01 | 86.5% | 64.6% |
| 1hfxA00 | 1.10.530.10 | Mainly Alpha › Orthogonal Bundle › Lysozyme › | 0.66 | 54.0 | 5.67e-01 | 98.5% | 95.9% |
| 3fyaB00 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.63 | 36.0 | 4.59e-01 | 88.0% | 97.4% |
| 2pjqA01 | 1.10.472.50 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like | 0.62 | 36.0 | 4.21e-01 | 88.7% | 83.1% |
| 2yviA00 | 1.10.533.10 | Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas | 0.61 | 39.0 | 4.59e-01 | 84.2% | 95.5% |
| 3pxpA01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.60 | 37.0 | 4.34e-01 | 86.5% | 87.1% |
| 3safA02 | 1.10.150.80 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain | 0.57 | 38.0 | 4.33e-01 | 96.2% | 91.0% |
| 4nlbA02 | 1.10.150.80 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › HRDC domain | 0.56 | 38.0 | 4.40e-01 | 98.5% | 100.0% |
| 3kxaA02 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.55 | 30.0 | 3.80e-01 | 97.7% | 100.0% |
| 3qnmA02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.54 | 34.0 | 3.95e-01 | 93.2% | 92.2% |
| 3f51C00 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.54 | 31.0 | 3.53e-01 | 88.0% | 78.9% |
| 2no4A02 | 1.10.150.240 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 | 0.52 | 30.0 | 3.76e-01 | 83.5% | 100.0% |
| 2om6A02 | 1.10.150.400 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › | 0.52 | 30.0 | 3.75e-01 | 88.0% | 96.2% |
| 1ci4A00 | 1.10.150.40 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Barrier-to-autointegration factor, BAF | 0.52 | 31.0 | 3.67e-01 | 98.5% | 88.6% |
| 2vk9A03 | 1.10.3730.30 | Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › | 0.52 | 35.0 | 3.95e-01 | 86.5% | 93.9% |
| 1dw9A01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.52 | 29.0 | 3.50e-01 | 97.0% | 83.9% |
| 2ld7B00 | 1.20.1160.11 | Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix | 0.51 | 29.0 | 3.62e-01 | 97.0% | 96.0% |
| 3e1sA01 | 1.10.10.2220 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.51 | 31.0 | 3.55e-01 | 99.2% | 83.2% |
| 1g3nC01 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.51 | 36.0 | 3.79e-01 | 100.0% | 81.7% |
ECOD (17)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3289790 | 235.1.1.23 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme2 | 0.86 | 82.0 | 7.71e-01 | 100.0% | 99.4% |
| 1253692 | 235.1.1.23 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Phage_lysozyme2 | 0.84 | 78.0 | 7.24e-01 | 99.2% | 95.1% |
| 3279121 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.77 | 54.0 | 6.25e-01 | 86.5% | 100.0% |
| 3254511 | 235.1.1.1 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › Lys | 0.75 | 56.0 | 6.24e-01 | 98.5% | 98.1% |
| 3979308 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.71 | 65.0 | 5.95e-01 | 100.0% | 100.0% |
| 1175858 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.71 | 64.0 | 5.66e-01 | 97.7% | 93.7% |
| 2393514 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.70 | 64.0 | 5.66e-01 | 99.2% | 87.9% |
| 4258903 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.69 | 59.0 | 5.49e-01 | 91.0% | 94.5% |
| 4506348 | 160.1.1.1 ↗ | alpha superhelices › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › C-terminal domain of alpha and beta subunits of F1 ATP synthase › ATP-synt_ab_C | 0.69 | 41.0 | 4.18e-01 | 86.5% | 60.0% |
| 4952939 | 148.1.3.251 ↗ | alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › PF30647 | 0.68 | 37.0 | 4.87e-01 | 94.0% | 100.0% |
| 3985073 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.68 | 60.0 | 5.98e-01 | 96.2% | 93.3% |
| 4995668 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.67 | 55.0 | 5.72e-01 | 87.2% | 100.0% |
| 3657952 | 235.1.1.9 ↗ | a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › SLT | 0.66 | 60.0 | 5.25e-01 | 99.2% | 78.0% |
| 3979217 | 3576.1.1.1 ↗ | a+b complex topology › Cas8-like › Cascade subunit CasA/Cse1/Cas8 › Cascade subunit CasA/Cse1/Cas8 › CRISPR_Cse1 | 0.55 | 44.0 | 3.01e-01 | 85.7% | 55.9% |
| 381796 | 101.1.4.3 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 | 0.54 | 33.0 | 3.38e-01 | 100.0% | 60.3% |
| 4928737 | 592.2.1.0 ↗ | alpha arrays › PWI domain-like › YugE-like › YugE-like | 0.54 | 35.0 | 4.04e-01 | 91.7% | 91.6% |
| 3388953 | 101.1.1.0 ↗ | alpha arrays › HTH › HTH › Three-helical HTH | 0.50 | 26.0 | 3.11e-01 | 79.7% | 76.2% |