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EF537008.1__ABQ12481.1__PfWMP3_41__00041
Bact-VirEF537008.1__ABQ12481.1__PfWMP3_41__00041
Identity
- Accession:
- EF537008 ↗
- Kingdom:
- phage
Quality
85.7
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Saffermanviridae›
Wumptrevirus›
Phormidium_phage_Pf-WMP3
TaxID: 2914005
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 3-80
Domain cluster:
rep: NC_031927.1__YP_009323018.1__BOW86_gp085__00085__D3-79
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF01541.31 best | GIY-YIG | 33.0 | 8.40e-08 | 98.7% | 80.8% |
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1ln0A00 | 3.40.1440.10 | Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease | 0.91 | 86.0 | 8.08e-01 | 100.0% | 96.7% |
| 3h20A01 | 3.30.1490.240 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain | 0.69 | 41.0 | 4.44e-01 | 80.8% | 69.7% |
| 3ujzA03 | 2.60.20.40 | Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › | 0.67 | 38.0 | 3.49e-01 | 80.8% | 43.0% |
| 2q1mA00 | 2.60.120.40 | Mainly Beta › Sandwich › Jelly Rolls › | 0.61 | 32.0 | 2.82e-01 | 80.8% | 34.5% |
| 1ltlA03 | 2.20.28.10 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.60 | 37.0 | 4.26e-01 | 80.8% | 95.9% |
| 2v50D07 | 3.30.70.1440 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Multidrug efflux transporter AcrB pore domain | 0.57 | 42.0 | 3.93e-01 | 76.9% | 92.6% |
| 3pe5A00 | 3.40.630.190 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein | 0.56 | 49.0 | 3.39e-01 | 100.0% | 94.6% |
| 4iajA00 | 3.30.1490.390 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 | 0.56 | 35.0 | 3.62e-01 | 79.5% | 65.8% |
| 3rp6A02 | 3.30.9.30 | Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › | 0.56 | 48.0 | 3.56e-01 | 100.0% | 51.1% |
| 3cjmA00 | 3.40.710.10 | Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily | 0.53 | 39.0 | 2.77e-01 | 78.2% | 62.7% |
| 3nroA00 | 3.40.630.190 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein | 0.53 | 46.0 | 3.34e-01 | 100.0% | 77.9% |
| 2j3lA03 | 3.90.960.10 | Alpha Beta › Alpha-Beta Complex › YbaK protein › YbaK/aminoacyl-tRNA synthetase-associated domain | 0.52 | 45.0 | 3.73e-01 | 100.0% | 79.6% |
| 2pnqA00 | 3.60.40.10 | Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain | 0.52 | 43.0 | 2.79e-01 | 94.9% | 85.9% |
| 2piaA01 | 2.40.30.10 | Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors | 0.51 | 37.0 | 3.49e-01 | 82.1% | 63.5% |
| 4kyzA00 | 3.30.70.600 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 | 0.51 | 37.0 | 2.93e-01 | 78.2% | 47.3% |
| 1r9fA01 | 3.30.390.180 | Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 | 0.50 | 36.0 | 3.33e-01 | 79.5% | 56.0% |
| 3d00A01 | 3.30.1330.130 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › | 0.50 | 34.0 | 2.82e-01 | 71.8% | 43.1% |
| 2z5bA00 | 3.30.230.100 | Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › | 0.50 | 36.0 | 3.17e-01 | 78.2% | 95.3% |
ECOD (16)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 77927 | 821.1.1.1 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG | 0.91 | 86.0 | 8.01e-01 | 100.0% | 93.6% |
| 4677975 | 821.1.1.1 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG | 0.83 | 78.0 | 6.68e-01 | 100.0% | 75.4% |
| 3496147 | 821.1.1.0 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease | 0.78 | 71.0 | 6.48e-01 | 100.0% | 98.0% |
| 3582540 | 821.1.1.0 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease | 0.78 | 70.0 | 6.37e-01 | 100.0% | 97.1% |
| 3620613 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.64 | 37.0 | 4.47e-01 | 78.2% | 97.8% |
| 3449714 | 206.1.3.0 ↗ | a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp | 0.58 | 48.0 | 2.99e-01 | 94.9% | 41.0% |
| 3959440 | 4.1.1.180 ↗ | beta barrels › SH3 › SH3 › SH3 › DUF3107 | 0.58 | 41.0 | 4.42e-01 | 76.9% | 96.9% |
| 3633323 | 1.1.2.19 ↗ | beta barrels › cradle loop barrel › RIFT-related › double psi › IML1_N | 0.57 | 41.0 | 3.91e-01 | 84.6% | 63.2% |
| 4945301 | 223.2.1.0 ↗ | a+b three layers › Profilin-like › profilin-like › profilin-like | 0.57 | 41.0 | 3.30e-01 | 75.6% | 48.0% |
| 5047755 | 2492.1.1.7 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ | 0.56 | 41.0 | 3.40e-01 | 78.2% | 49.3% |
| 4011615 | 2492.1.1.32 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › OTT_1508_deam | 0.54 | 46.0 | 3.63e-01 | 100.0% | 76.2% |
| 3935404 | 221.1.1.76 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 | 0.54 | 33.0 | 3.21e-01 | 79.5% | 52.2% |
| 4990489 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.53 | 33.0 | 3.87e-01 | 78.2% | 98.0% |
| 3816922 | 4081.1.1.0 ↗ | beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related | 0.52 | 35.0 | 2.40e-01 | 70.5% | 97.9% |
| 4385357 | 299.1.1.1 ↗ | a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain › tRNA_edit | 0.51 | 44.0 | 3.78e-01 | 100.0% | 75.6% |
| 5047668 | 2003.1.5.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases | 0.50 | 39.0 | 2.85e-01 | 88.5% | 61.8% |
D2
high
residues 93-161
Domain cluster:
rep: OP310984.1__UXD83619.1__NP274_00212__00212__D3-72
CATH (20)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1u3eM02 | 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 | 0.91 | 67.0 | 6.81e-01 | 76.8% | 80.9% |
| 2yvlA01 | 3.10.330.20 | Alpha Beta › Roll › Vcp-like ATPase; Chain A, domain 2 › | 0.67 | 47.0 | 5.04e-01 | 72.5% | 87.9% |
| 3l2hA01 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.64 | 35.0 | 2.69e-01 | 79.7% | 25.2% |
| 2ozjA00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.63 | 34.0 | 2.92e-01 | 79.7% | 33.0% |
| 1vj2A00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.62 | 34.0 | 2.88e-01 | 79.7% | 31.6% |
| 2jqjA01 | 2.60.200.20 | Mainly Beta › Sandwich › Tumour Suppressor Smad4 › | 0.58 | 42.0 | 3.50e-01 | 78.3% | 82.3% |
| 1vajA02 | 3.30.1490.150 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Hypothetical protein ph0010; domain 2 | 0.57 | 37.0 | 3.65e-01 | 98.6% | 60.8% |
| 3ttcA01 | 3.90.870.30 | Alpha Beta › Alpha-Beta Complex › DHBP synthase › | 0.56 | 40.0 | 2.97e-01 | 76.8% | 89.3% |
| 3v10A02 | 2.60.40.740 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.56 | 40.0 | 3.15e-01 | 75.4% | 36.3% |
| 1qwrA02 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.56 | 36.0 | 3.26e-01 | 100.0% | 50.6% |
| 3myxA02 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.56 | 33.0 | 2.80e-01 | 95.7% | 34.8% |
| 3d82A00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.56 | 33.0 | 2.92e-01 | 95.7% | 39.2% |
| 1vk1A02 | 3.30.1760.10 | Alpha Beta › 2-Layer Sandwich › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, domain 2 › Conserved hypothetical protein from pyrococcus furiosus pfu- 392566-001, domain 2 | 0.54 | 46.0 | 3.84e-01 | 100.0% | 71.5% |
| 3lwcA00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.54 | 34.0 | 2.98e-01 | 100.0% | 41.7% |
| 1sefA02 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.54 | 34.0 | 2.81e-01 | 100.0% | 37.0% |
| 4dq2A03 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.54 | 35.0 | 4.14e-01 | 73.9% | 97.9% |
| 3h5tA01 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.53 | 35.0 | 4.05e-01 | 75.4% | 100.0% |
| 2cs4A00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.53 | 37.0 | 3.46e-01 | 76.8% | 87.4% |
| 5c8qB02 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.52 | 34.0 | 3.97e-01 | 95.7% | 100.0% |
| 3bo5A00 | 2.170.270.10 | Mainly Beta › Beta Complex › Beta-clip-like › SET domain | 0.50 | 42.0 | 2.92e-01 | 100.0% | 86.6% |
ECOD (10)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2876 | 101.1.14.2 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like | 0.91 | 67.0 | 6.76e-01 | 76.8% | 79.7% |
| 4384880 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.78 | 56.0 | 5.23e-01 | 75.4% | 65.9% |
| 4414927 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.74 | 54.0 | 5.44e-01 | 76.8% | 89.9% |
| 5017308 | 4012.1.1.5 ↗ | a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase › DUF515 | 0.65 | 37.0 | 3.98e-01 | 72.5% | 65.0% |
| 5012954 | 632.2.1.40 ↗ | alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains › DUF515 | 0.65 | 38.0 | 2.95e-01 | 72.5% | 28.6% |
| 3407580 | 379.1.1.0 ↗ | few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors | 0.62 | 39.0 | 3.89e-01 | 81.2% | 61.4% |
| 3948935 | 7048.1.1.1 ↗ | a+b complex topology › head domain of ScoMcrA › head domain of ScoMcrA › head domain of ScoMcrA › ScoMcrA_N | 0.60 | 50.0 | 4.78e-01 | 98.6% | 100.0% |
| 3387378 | 4.1.1.13 ↗ | beta barrels › SH3 › SH3 › SH3 › MS_channel_2nd | 0.54 | 38.0 | 3.56e-01 | 73.9% | 71.8% |
| 3551383 | 2006.1.3.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim,TOPRIM_C | 0.50 | 35.0 | 2.34e-01 | 73.9% | 24.5% |
| 4928315 | 192.2.1.1 ↗ | alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 | 0.50 | 28.0 | 2.74e-01 | 98.6% | 46.7% |