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NC_049457.1__YP_009883071.1__HYP86_gp26__00026
Bact-VirNC_049457.1__YP_009883071.1__HYP86_gp26__00026
Identity
- Accession:
- NC_049457 ↗
- Kingdom:
- phage
Quality
83.2
mean pLDDT
Taxonomy
Heunggongvirae›
Uroviricota›
Caudoviricetes›
Peduoviridae›
Peduovirus›
Escherichia_phage_vB_EcoM-12474III
TaxID: 2576484
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 4-166
Domain cluster:
rep: hypothetical_protein_D1R72_gp005__YP_009507402__Heterosigma_akashiwo_virus_01__97195__D259-392
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF21941.3 best | SMEK_N | 72.9 | 3.40e-20 | 82.8% | 79.3% |
CATH (22)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4oc8A02 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.64 | 58.0 | 5.68e-01 | 95.7% | 90.7% |
| 1yvuA03 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.59 | 35.0 | 3.61e-01 | 77.3% | 60.4% |
| 2wnsA00 | 3.40.50.2020 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.58 | 44.0 | 4.20e-01 | 79.8% | 87.3% |
| 3k9tA01 | 3.40.630.10 | Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases | 0.58 | 47.0 | 4.07e-01 | 87.7% | 95.0% |
| 3odhA00 | 3.40.91.20 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.57 | 45.0 | 4.24e-01 | 81.6% | 75.3% |
| 2uvaG04 | 3.20.20.70 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I | 0.57 | 42.0 | 3.49e-01 | 76.1% | 75.1% |
| 5flmE01 | 3.40.1340.10 | Alpha Beta › 3-Layer(aba) Sandwich › Dna-directed Rna Polymerases I, Ii, And Iii 27 Kd Polypeptide; Chain: A; domain 1 › RNA polymerase, Rpb5, N-terminal domain | 0.57 | 43.0 | 4.68e-01 | 77.9% | 100.0% |
| 7b7pA01 | 3.40.50.410 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › von Willebrand factor, type A domain | 0.57 | 44.0 | 3.80e-01 | 82.2% | 89.4% |
| 6vloD01 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.57 | 41.0 | 3.82e-01 | 74.8% | 96.2% |
| 1sdoA00 | 3.40.91.20 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › | 0.56 | 44.0 | 4.19e-01 | 81.6% | 83.9% |
| 4m70I00 | 1.20.5.4130 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › | 0.56 | 27.0 | 3.27e-01 | 97.5% | 66.7% |
| 1y0kA00 | 3.40.1540.10 | Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical protein pa4535 › Protein of unknown function DUF1780, putative endonuclease | 0.56 | 48.0 | 4.69e-01 | 92.6% | 97.8% |
| 4tqgA00 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.55 | 41.0 | 3.41e-01 | 77.9% | 96.3% |
| 5k6lA01 | 3.40.50.1700 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycoside hydrolase family 3 C-terminal domain | 0.53 | 43.0 | 3.83e-01 | 89.0% | 86.5% |
| 1cpyA01 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.52 | 42.0 | 3.35e-01 | 87.1% | 80.5% |
| 3slkA02 | 3.90.180.10 | Alpha Beta › Alpha-Beta Complex › Quinone Oxidoreductase; Chain A, domain 1 › Medium-chain alcohol dehydrogenases, catalytic domain | 0.51 | 46.0 | 3.68e-01 | 98.8% | 86.2% |
| 5d6oA00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.51 | 38.0 | 3.03e-01 | 78.5% | 96.0% |
| 4jc8A01 | 3.40.50.2060 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Sec1/Munc18 (SM) protein, domain 1 | 0.51 | 40.0 | 4.32e-01 | 98.2% | 98.5% |
| 4wd1A01 | 3.40.50.12780 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain | 0.50 | 43.0 | 3.25e-01 | 93.3% | 53.9% |
| 4ivnA02 | 3.40.50.10490 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 | 0.50 | 40.0 | 3.85e-01 | 85.3% | 75.0% |
| 1zkpC00 | 3.60.15.10 | Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like | 0.50 | 42.0 | 3.71e-01 | 90.8% | 93.5% |
| 3ga7A00 | 3.40.50.1820 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain | 0.50 | 44.0 | 3.62e-01 | 96.9% | 91.9% |
ECOD (41)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4031732 | 2008.1.1.126 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SMEK_N | 0.88 | 83.0 | 8.32e-01 | 98.2% | 99.4% |
| 5009348 | 2008.1.1.108 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 | 0.74 | 48.0 | 5.81e-01 | 73.6% | 100.0% |
| 3979568 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.73 | 66.0 | 6.77e-01 | 96.3% | 100.0% |
| 3979985 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.70 | 59.0 | 6.23e-01 | 98.2% | 100.0% |
| 3956485 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.70 | 60.0 | 6.08e-01 | 96.9% | 92.5% |
| 5032442 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.69 | 55.0 | 5.98e-01 | 96.3% | 100.0% |
| 5077224 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.69 | 51.0 | 5.33e-01 | 75.5% | 87.3% |
| 3945413 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.69 | 56.0 | 5.55e-01 | 85.9% | 81.2% |
| 4938798 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.69 | 58.0 | 6.12e-01 | 98.8% | 100.0% |
| 5057822 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.66 | 55.0 | 5.84e-01 | 93.3% | 99.3% |
| 4946865 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.66 | 44.0 | 5.22e-01 | 81.6% | 100.0% |
| 3904143 | 2003.1.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains | 0.65 | 46.0 | 5.01e-01 | 71.2% | 87.4% |
| 4945218 | 2008.1.1.141 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_19 | 0.65 | 50.0 | 5.28e-01 | 84.0% | 90.3% |
| 1147702 | 2008.1.1.16 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Mrr_cat | 0.64 | 58.0 | 5.70e-01 | 95.7% | 91.2% |
| 4031180 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.64 | 52.0 | 5.47e-01 | 92.6% | 95.2% |
| 3249727 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.63 | 49.0 | 4.69e-01 | 81.6% | 84.2% |
| 5070502 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.62 | 48.0 | 5.13e-01 | 80.4% | 97.2% |
| 3385518 | 2008.1.1.108 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF234 | 0.61 | 53.0 | 5.27e-01 | 92.0% | 95.3% |
| 3189350 | 2002.1.1.86 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_59 | 0.61 | 46.0 | 3.45e-01 | 77.9% | 80.0% |
| 3884239 | 2003.1.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains | 0.58 | 40.0 | 4.46e-01 | 73.0% | 91.2% |
| 3832048 | 7590.1.1.0 ↗ | a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs | 0.58 | 37.0 | 3.80e-01 | 77.3% | 65.8% |
| 5073762 | 2002.1.1.0 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels | 0.57 | 42.0 | 3.17e-01 | 74.8% | 91.6% |
| 5048944 | 2008.1.1.96 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RmuC | 0.57 | 47.0 | 4.69e-01 | 87.7% | 94.5% |
| 4591272 | 7573.1.1.1 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › Pribosyltran | 0.56 | 42.0 | 4.35e-01 | 77.9% | 96.8% |
| 3925320 | 2006.1.6.0 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like | 0.56 | 42.0 | 3.83e-01 | 76.1% | 86.5% |
| 3366158 | 7512.1.1.0 ↗ | a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase | 0.56 | 43.0 | 3.61e-01 | 80.4% | 89.1% |
| 3231811 | 7579.1.1.12 ↗ | a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Lipase_2 | 0.55 | 40.0 | 3.38e-01 | 75.5% | 74.6% |
| 4125586 | 7573.1.1.1 ↗ | a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › Pribosyltran | 0.54 | 42.0 | 4.02e-01 | 81.0% | 89.5% |
| 3108143 | 247.1.1.1 ↗ | a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B | 0.54 | 33.0 | 4.01e-01 | 71.2% | 95.1% |
| 4935083 | 2002.1.1.10 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › IGPS | 0.54 | 42.0 | 3.76e-01 | 82.8% | 86.4% |
| 3246486 | 323.1.1.3 ↗ | a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding | 0.54 | 43.0 | 3.89e-01 | 85.9% | 77.8% |
| 3720049 | 2484.1.1.191 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RHSP | 0.53 | 32.0 | 3.76e-01 | 77.9% | 87.3% |
| 4558584 | 2006.1.2.3 ↗ | a/b three-layered sandwiches › HAD domain-like › HAD domain-related › DHH phosphoesterases › CDC45 | 0.52 | 46.0 | 3.37e-01 | 96.9% | 85.2% |
| 3487379 | 2007.9.1.6 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Toll/Interleukin receptor TIR domain › Toll/Interleukin receptor TIR domain › MAP3K_TRAF_bd+DRHyd-ASK | 0.52 | 40.0 | 4.00e-01 | 79.1% | 90.9% |
| 4991137 | 7583.1.1.1 ↗ | a/b three-layered sandwiches › Rossmann-like domain in AF1104-like proteins › Rossmann-like domain in AF1104-like proteins › Rossmann-like domain in AF1104-like proteins › ARMT1-like_dom | 0.52 | 37.0 | 3.52e-01 | 73.6% | 87.5% |
| 4459077 | 2003.1.5.67 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_12 | 0.51 | 41.0 | 3.28e-01 | 87.7% | 86.3% |
| 3566535 | 2002.1.1.67 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Pro_dh | 0.51 | 46.0 | 3.38e-01 | 100.0% | 83.3% |
| None | — | 0.51 | 37.0 | 3.35e-01 | 74.2% | 90.2% | |
| 3713370 | 2496.1.1.0 ↗ | a/b three-layered sandwiches › SpoIIaa-like › SpoIIaa-like › SpoIIaa-like | 0.51 | 39.0 | 3.98e-01 | 81.0% | 87.1% |
| 4112959 | 7512.1.1.1 ↗ | a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDPGT | 0.50 | 39.0 | 3.32e-01 | 80.4% | 92.5% |
| 3926153 | 2007.1.2.0 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I | 0.50 | 41.0 | 3.94e-01 | 85.9% | 86.5% |
D2
high
residues 191-356
Domain cluster:
representative
CATH (9)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1fp2A01 | 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 | 0.75 | 36.0 | 4.71e-01 | 72.3% | 80.2% |
| 3f6oB00 | 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 | 37.0 | 4.83e-01 | 83.1% | 96.7% |
| 3elkA00 | 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 | 36.0 | 4.47e-01 | 71.1% | 82.9% |
| 1z7uB00 | 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 | 0.66 | 42.0 | 4.97e-01 | 78.9% | 94.5% |
| 1yyvB00 | 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 | 0.66 | 39.0 | 4.71e-01 | 75.9% | 87.5% |
| 1fpqA02 | 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 | 42.0 | 4.69e-01 | 75.9% | 82.9% |
| 1bm9A00 | 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 | 0.62 | 37.0 | 4.23e-01 | 72.9% | 79.2% |
| 1vm0A00 | 3.30.110.20 | Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain | 0.55 | 28.0 | 3.69e-01 | 72.9% | 87.1% |
| 2v79A00 | 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 | 0.54 | 31.0 | 3.63e-01 | 80.1% | 79.1% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4983310 | 101.1.2.14 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_5 | 0.74 | 44.0 | 5.49e-01 | 77.1% | 96.0% |
| 3461177 | 101.1.2.88 ↗ | alpha arrays › HTH › HTH › winged helix domain › Dimerisation | 0.73 | 36.0 | 4.61e-01 | 70.5% | 79.0% |
| 5045098 | 101.1.2.136 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_20 | 0.67 | 37.0 | 4.92e-01 | 75.9% | 100.0% |
| 3701445 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.66 | 43.0 | 4.69e-01 | 73.5% | 79.3% |
| 3439866 | 101.1.2.88 ↗ | alpha arrays › HTH › HTH › winged helix domain › Dimerisation | 0.65 | 42.0 | 4.51e-01 | 75.9% | 74.5% |
| 3464534 | 101.1.2.641 ↗ | alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1, DUF7647 | 0.62 | 45.0 | 3.04e-01 | 74.1% | 33.0% |
| 5045788 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.60 | 47.0 | 4.62e-01 | 83.1% | 97.2% |
| 3505211 | 101.1.2.101 ↗ | alpha arrays › HTH › HTH › winged helix domain › Cdc6_C | 0.59 | 45.0 | 4.91e-01 | 78.3% | 94.2% |
| 3479163 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.58 | 41.0 | 4.61e-01 | 82.5% | 93.1% |
| 4201034 | 101.1.2.41 ↗ | alpha arrays › HTH › HTH › winged helix domain › FokI_dom_2 | 0.58 | 43.0 | 4.48e-01 | 76.5% | 99.3% |
| 3685188 | 101.1.2.68 ↗ | alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc34 | 0.56 | 42.0 | 4.11e-01 | 77.7% | 70.9% |
| 3590646 | 101.1.2.16 ↗ | alpha arrays › HTH › HTH › winged helix domain › Rep3_N | 0.56 | 40.0 | 4.54e-01 | 88.0% | 97.6% |
| 5053177 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.52 | 41.0 | 4.18e-01 | 83.1% | 84.8% |