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KR052482.1__AKF13513.1__PHIN3_250__00250
Bact-VirKR052482.1__AKF13513.1__PHIN3_250__00250
Identity
- Accession:
- KR052482 ↗
- Kingdom:
- phage
Quality
87.2
mean pLDDT
Taxonomy
TaxID: 1647405
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 11-101
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 | 26.0 | 1.20e-05 | 87.9% | 93.6% |
CATH (8)
| 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 | 0.74 | 63.0 | 6.36e-01 | 92.3% | 100.0% |
| 4dohE02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.73 | 39.0 | 3.75e-01 | 70.3% | 45.3% |
| 4eq3A02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.67 | 40.0 | 3.79e-01 | 70.3% | 50.0% |
| 2jxtA01 | 3.10.20.10 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › | 0.65 | 48.0 | 5.21e-01 | 100.0% | 94.7% |
| 4lvnP00 | 3.30.70.2380 | Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › | 0.60 | 31.0 | 3.31e-01 | 89.0% | 54.3% |
| 3kalB05 | 3.30.1490.50 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Glutathione synthase lid domain | 0.55 | 28.0 | 3.40e-01 | 76.9% | 74.6% |
| 2f9zC00 | 3.30.1330.200 | Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › | 0.53 | 42.0 | 3.57e-01 | 85.7% | 73.4% |
| 1wvfA03 | 3.40.462.10 | Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › FAD-linked oxidases, C-terminal domain | 0.52 | 43.0 | 3.24e-01 | 90.1% | 83.5% |
ECOD (14)
| 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 | 0.75 | 65.0 | 6.43e-01 | 93.4% | 98.9% |
| 3215217 | 821.1.1.7 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › LEM-3_GIY-YIG | 0.71 | 61.0 | 5.03e-01 | 95.6% | 67.9% |
| 5053865 | 821.1.1.0 ↗ | a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease | 0.67 | 52.0 | 5.28e-01 | 81.3% | 85.6% |
| 3256398 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.64 | 39.0 | 3.91e-01 | 74.7% | 58.9% |
| 1291966 | 304.7.1.5 ↗ | a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › SUB1_ProdP9 | 0.60 | 31.0 | 3.31e-01 | 89.0% | 54.3% |
| 3508717 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.58 | 34.0 | 3.84e-01 | 70.3% | 75.7% |
| 3463336 | 1.1.2.0 ↗ | beta barrels › cradle loop barrel › RIFT-related › double psi | 0.57 | 34.0 | 3.36e-01 | 74.7% | 54.0% |
| 4202856 | 299.1.1.1 ↗ | a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain › tRNA_edit | 0.56 | 49.0 | 4.10e-01 | 98.9% | 74.5% |
| 5028983 | 299.1.1.0 ↗ | a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain | 0.56 | 49.0 | 3.92e-01 | 97.8% | 74.5% |
| 3210904 | 12.6.1.0 ↗ | beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related | 0.56 | 48.0 | 4.18e-01 | 93.4% | 99.3% |
| 3773868 | 11.1.1.2 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 | 0.56 | 38.0 | 3.60e-01 | 70.3% | 67.3% |
| 3652557 | 1.1.2.9 ↗ | beta barrels › cradle loop barrel › RIFT-related › double psi › DPBB_1 | 0.55 | 41.0 | 4.19e-01 | 100.0% | 81.1% |
| 3501768 | 382.1.1.0 ↗ | few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like | 0.51 | 34.0 | 3.80e-01 | 74.7% | 88.6% |
| 5076740 | 304.4.1.0 ↗ | a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel | 0.50 | 42.0 | 4.04e-01 | 100.0% | 78.1% |
D2
high
residues 152-205
Domain cluster:
rep: ON526839.1__URG17631.1__GRN51_150__00015__D54-100
CATH (25)
| 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 | 0.85 | 73.0 | 6.78e-01 | 100.0% | 76.5% |
| 4gi3C00 | 3.30.60.30 | Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › | 0.67 | 44.0 | 4.40e-01 | 96.3% | 64.9% |
| 2mqkA00 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.64 | 50.0 | 4.73e-01 | 85.2% | 73.8% |
| 2mtzA01 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.60 | 44.0 | 4.62e-01 | 77.8% | 92.0% |
| 2xi8A00 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.60 | 49.0 | 4.64e-01 | 90.7% | 84.8% |
| 2o2kA01 | 3.10.196.10 | Alpha Beta › Roll › Cobalamin-dependent Methionine Synthase; domain 1 › Vitamin B12-dependent methionine synthase, activation domain | 0.60 | 43.0 | 2.84e-01 | 77.8% | 97.5% |
| 2ltuA00 | 1.10.8.10 | Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain | 0.59 | 39.0 | 3.74e-01 | 96.3% | 58.1% |
| 3bs3A00 | 1.10.260.40 | Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains | 0.57 | 46.0 | 4.46e-01 | 90.7% | 93.3% |
| 3waiA02 | 2.60.40.3390 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.56 | 44.0 | 3.66e-01 | 100.0% | 49.5% |
| 3pfiA03 | 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 | 0.56 | 39.0 | 3.57e-01 | 85.2% | 54.8% |
| 4nlcA01 | 3.30.420.10 | Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H | 0.56 | 44.0 | 2.91e-01 | 90.7% | 57.6% |
| 5c8qB02 | 3.10.350.10 | Alpha Beta › Roll › Membrane-bound Lytic Murein Transglycosylase D; Chain A › LysM domain | 0.56 | 42.0 | 4.51e-01 | 81.5% | 100.0% |
| 1wi0A00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.55 | 44.0 | 3.62e-01 | 94.4% | 86.7% |
| 4iajA00 | 3.30.1490.390 | Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 | 0.54 | 41.0 | 3.64e-01 | 100.0% | 57.9% |
| 2ej9A02 | 2.30.30.100 | Mainly Beta › Roll › SH3 type barrels. › | 0.53 | 41.0 | 4.24e-01 | 94.4% | 91.8% |
| 2cyjA00 | 3.40.1230.10 | Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Mth938; Chain: A, › MTH938-like | 0.53 | 42.0 | 3.39e-01 | 90.7% | 81.2% |
| 1e2yF00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.52 | 42.0 | 3.15e-01 | 96.3% | 57.8% |
| 2pstX00 | 3.90.820.10 | Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id | 0.52 | 33.0 | 3.25e-01 | 75.9% | 54.1% |
| 1wmhB00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.52 | 41.0 | 3.68e-01 | 92.6% | 98.8% |
| 1w1oA02 | 3.30.465.10 | Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › | 0.51 | 43.0 | 3.36e-01 | 98.1% | 75.6% |
| 3ewlB00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.51 | 44.0 | 3.32e-01 | 100.0% | 66.4% |
| 4wz2C00 | 3.30.40.10 | Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) | 0.51 | 36.0 | 3.31e-01 | 92.6% | 56.8% |
| 1wdjA00 | 3.90.1570.10 | Alpha Beta › Alpha-Beta Complex › tt1808, chain A › tt1808, chain A | 0.50 | 40.0 | 2.95e-01 | 100.0% | 74.7% |
| 2nmlA00 | 3.30.2260.10 | Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary | 0.50 | 41.0 | 3.45e-01 | 96.3% | 66.0% |
| 2yzhA00 | 3.40.30.10 | Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin | 0.50 | 43.0 | 3.11e-01 | 100.0% | 51.2% |
ECOD (33)
| 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 | 0.85 | 73.0 | 6.74e-01 | 100.0% | 75.4% |
| 4384880 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.69 | 59.0 | 5.16e-01 | 100.0% | 63.5% |
| 4414927 | 101.1.14.3 ↗ | alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › NUMOD1 | 0.68 | 58.0 | 5.41e-01 | 100.0% | 81.2% |
| 3166016 | 101.1.4.17 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_26 | 0.68 | 53.0 | 5.13e-01 | 83.3% | 83.3% |
| 153859 | 379.1.1.0 ↗ | few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors | 0.67 | 44.0 | 4.40e-01 | 96.3% | 64.9% |
| 3964678 | 101.1.4.0 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like | 0.67 | 51.0 | 4.86e-01 | 83.3% | 92.3% |
| 3400250 | 379.1.1.3 ↗ | few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 | 0.67 | 45.0 | 4.68e-01 | 98.1% | 76.0% |
| 3686534 | 386.1.1.0 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers | 0.66 | 44.0 | 4.72e-01 | 70.4% | 100.0% |
| 4608707 | 284.1.1.5 ↗ | a+b two layers › FKBP-like › FKBP-like › FKBP-like › Gcd10p | 0.63 | 51.0 | 3.70e-01 | 94.4% | 94.5% |
| 4969847 | 314.1.1.0 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases | 0.62 | 52.0 | 3.16e-01 | 96.3% | 19.2% |
| 5028710 | 101.1.4.0 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like | 0.62 | 49.0 | 4.43e-01 | 87.0% | 78.7% |
| 3621342 | 382.1.1.0 ↗ | few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like | 0.62 | 52.0 | 4.46e-01 | 100.0% | 92.6% |
| 4139949 | 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 | 40.0 | 4.48e-01 | 96.3% | 92.5% |
| 4167099 | 149.1.1.1 ↗ | alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 | 0.61 | 45.0 | 2.62e-01 | 81.5% | 65.1% |
| 1096061 | 3375.1.1.1 ↗ | beta barrels › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › DdrB | 0.61 | 42.0 | 3.16e-01 | 96.3% | 30.5% |
| 3978768 | 101.1.4.3 ↗ | alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like › HTH_3 | 0.61 | 49.0 | 4.63e-01 | 88.9% | 90.8% |
| 4978868 | 101.1.1.9 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_3 | 0.60 | 43.0 | 4.47e-01 | 77.8% | 100.0% |
| 3508278 | 4139.1.1.1 ↗ | a+b two layers › AMMECR1-like › AMMECR1-like › AMMECR1-like › AMMECR1 | 0.60 | 42.0 | 3.62e-01 | 75.9% | 62.1% |
| 3404558 | 379.1.1.0 ↗ | few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors | 0.60 | 40.0 | 4.15e-01 | 100.0% | 76.0% |
| 4342244 | 109.4.1.317 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Med5 | 0.59 | 41.0 | 2.89e-01 | 74.1% | 50.5% |
| 4944735 | 101.1.2.542 ↗ | alpha arrays › HTH › HTH › winged helix domain › ATPase_2 | 0.59 | 47.0 | 3.71e-01 | 94.4% | 40.0% |
| 3476699 | 101.1.1.60 ↗ | alpha arrays › HTH › HTH › Three-helical HTH › HTH_23 | 0.59 | 45.0 | 3.95e-01 | 85.2% | 65.9% |
| 3663747 | 226.1.1.3 ↗ | a+b two layers › POZ domain › POZ domain › POZ domain › Skp1,Skp1_POZ | 0.58 | 43.0 | 3.14e-01 | 94.4% | 27.3% |
| 3572307 | 4.1.1.405 ↗ | beta barrels › SH3 › SH3 › SH3 › CCDC174_GRSR | 0.58 | 32.0 | 3.89e-01 | 85.2% | 93.3% |
| 5002807 | 11.14.1.1 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domains in STT3 › Ig-like domains in STT3 › AglB_L1 | 0.57 | 46.0 | 3.82e-01 | 100.0% | 51.1% |
| 3670565 | 226.1.1.5 ↗ | a+b two layers › POZ domain › POZ domain › POZ domain › Skp1_POZ | 0.57 | 44.0 | 3.38e-01 | 96.3% | 36.2% |
| 4986404 | 4008.1.1.0 ↗ | 0.55 | 38.0 | 3.92e-01 | 96.3% | 78.0% | |
| 4964418 | 2485.1.1.4 ↗ | a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › AhpC-TSA | 0.55 | 45.0 | 3.28e-01 | 96.3% | 52.7% |
| 4943757 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.54 | 42.0 | 3.99e-01 | 85.2% | 80.0% |
| 3612291 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.53 | 41.0 | 2.60e-01 | 85.2% | 39.7% |
| 5064213 | 314.1.1.2 ↗ | a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2b | 0.52 | 41.0 | 2.59e-01 | 92.6% | 75.8% |
| 3176457 | 4139.1.1.1 ↗ | a+b two layers › AMMECR1-like › AMMECR1-like › AMMECR1-like › AMMECR1 | 0.52 | 44.0 | 3.80e-01 | 100.0% | 70.0% |
| 3698553 | 4012.3.1.0 ↗ | a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 | 0.50 | 43.0 | 4.33e-01 | 100.0% | 94.5% |