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NC_029033.1__YP_009220329.1__RU58_00028__00028
Bact-VirNC_029033.1__YP_009220329.1__RU58_00028__00028
Identity
- Accession:
- NC_029033 ↗
- Kingdom:
- phage
Quality
91.9
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 94-180
Domain cluster:
rep: OR225222.1__WLJ71079.1__X__00048__D93-189
CATH (19)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4qblE00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.96 | 83.0 | 7.10e-01 | 100.0% | 61.9% |
| 4qboA00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.81 | 61.0 | 5.98e-01 | 100.0% | 73.9% |
| 4qbnA00 | 3.40.1350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › | 0.77 | 59.0 | 5.81e-01 | 100.0% | 76.3% |
| 4n03A02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.56 | 41.0 | 3.30e-01 | 78.2% | 44.3% |
| 1cmwA01 | 3.40.50.1010 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease | 0.56 | 48.0 | 4.09e-01 | 98.9% | 73.5% |
| 2bh1X00 | 3.30.300.160 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Type II secretion system, protein E, N-terminal domain | 0.55 | 36.0 | 3.93e-01 | 90.8% | 83.8% |
| 3hi0A03 | 1.10.3210.10 | Mainly Alpha › Orthogonal Bundle › Hypothetical protein af1432 › Hypothetical protein af1432 | 0.55 | 40.0 | 3.14e-01 | 77.0% | 88.6% |
| 4impA02 | 3.40.50.11460 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.54 | 48.0 | 3.65e-01 | 100.0% | 74.4% |
| 3lftB02 | 3.40.50.2300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator | 0.54 | 41.0 | 3.50e-01 | 96.6% | 49.0% |
| 5e5bA01 | 3.40.350.10 | Alpha Beta › 3-Layer(aba) Sandwich › Creatine Amidinohydrolase; Chain A, domain 1 › Creatinase/prolidase N-terminal domain | 0.53 | 47.0 | 3.79e-01 | 100.0% | 51.5% |
| 3nv7A00 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.52 | 41.0 | 3.48e-01 | 100.0% | 49.0% |
| 3lvuB00 | 3.10.105.10 | Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 | 0.52 | 43.0 | 3.09e-01 | 89.7% | 66.9% |
| 1edzA02 | 3.40.50.10860 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 | 0.52 | 39.0 | 3.44e-01 | 80.5% | 61.1% |
| 2grvC03 | 3.10.105.10 | Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 | 0.51 | 43.0 | 3.28e-01 | 95.4% | 63.8% |
| 2m9mA00 | 3.40.50.10130 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › | 0.51 | 41.0 | 3.57e-01 | 100.0% | 55.4% |
| 2wolA02 | 3.10.105.10 | Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 | 0.51 | 39.0 | 2.88e-01 | 81.6% | 64.1% |
| 4ftfA00 | 3.30.300.250 | Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › | 0.51 | 40.0 | 3.77e-01 | 94.3% | 69.7% |
| 1iqpA01 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.50 | 37.0 | 3.02e-01 | 86.2% | 40.5% |
| 4njmA01 | 3.40.50.720 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain | 0.50 | 43.0 | 3.77e-01 | 98.9% | 89.1% |
ECOD (25)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1349404 | 2008.1.1.31 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › VRR_NUC | 0.95 | 84.0 | 7.27e-01 | 100.0% | 64.8% |
| 1348988 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.81 | 61.0 | 5.98e-01 | 100.0% | 73.9% |
| 4031212 | 2008.1.1.31 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › VRR_NUC | 0.80 | 60.0 | 5.96e-01 | 100.0% | 75.6% |
| 1349405 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.77 | 59.0 | 5.81e-01 | 100.0% | 76.3% |
| 3322346 | 224.1.1.0 ↗ | a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like | 0.63 | 40.0 | 4.36e-01 | 90.8% | 80.0% |
| 4952299 | 2008.1.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like | 0.60 | 49.0 | 3.78e-01 | 86.2% | 82.2% |
| 4500970 | 2007.1.2.42 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I › PF29770 | 0.58 | 41.0 | 3.19e-01 | 75.9% | 34.6% |
| 4028819 | 2008.1.1.86 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAP | 0.57 | 50.0 | 4.75e-01 | 100.0% | 80.0% |
| 4046369 | 2003.4.1.1 ↗ | a/b three-layered sandwiches › Rossmann-like › Tryptophan synthase beta subunit-like PLP-dependent enzymes › Tryptophan synthase beta subunit-like PLP-dependent enzymes › PALP | 0.57 | 43.0 | 3.36e-01 | 80.5% | 52.5% |
| 3964655 | 2008.1.1.17 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF559 | 0.56 | 50.0 | 4.64e-01 | 98.9% | 93.6% |
| 3624068 | 327.18.1.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A › Ribosomal_S7e | 0.55 | 38.0 | 3.76e-01 | 72.4% | 80.0% |
| 4943476 | 2004.1.1.0 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases | 0.54 | 47.0 | 3.37e-01 | 100.0% | 44.7% |
| 4838897 | 327.10.1.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › Ribosomal_S7e | 0.54 | 37.0 | 3.82e-01 | 72.4% | 89.4% |
| 4928867 | 2005.1.1.0 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains | 0.54 | 46.0 | 3.68e-01 | 100.0% | 47.6% |
| 3662290 | 2007.1.3.28 ↗ | a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › Glyco_transf_61 | 0.54 | 48.0 | 3.82e-01 | 100.0% | 77.0% |
| 5057363 | 327.18.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A | 0.53 | 37.0 | 4.03e-01 | 85.1% | 95.6% |
| 1421547 | 327.10.1.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › Ribosome-binding factor A (RbfA)-related › Ribosome-binding factor A (RbfA)-related › Ribosomal_S7e | 0.53 | 36.0 | 3.63e-01 | 71.3% | 84.1% |
| 1949629 | 327.18.1.1 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A › Ribosomal_S7e | 0.53 | 37.0 | 3.61e-01 | 75.9% | 81.2% |
| 4980728 | 327.11.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) | 0.52 | 35.0 | 3.77e-01 | 86.2% | 85.7% |
| 4934962 | 327.18.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A | 0.52 | 36.0 | 4.00e-01 | 87.4% | 100.0% |
| 3511364 | 2485.1.1.49 ↗ | a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin_12 | 0.51 | 41.0 | 3.21e-01 | 86.2% | 40.5% |
| 3282355 | 7584.1.1.0 ↗ | a/b three-layered sandwiches › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins › Rossmann-like domain in Acetyl-CoA synthetase-like proteins | 0.51 | 41.0 | 2.79e-01 | 90.8% | 38.6% |
| 5031799 | 327.18.1.0 ↗ | a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A | 0.51 | 35.0 | 3.82e-01 | 85.1% | 94.2% |
| 4947849 | 2008.2.1.0 ↗ | a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like | 0.51 | 42.0 | 4.15e-01 | 92.0% | 94.7% |
| 3300058 | 7512.1.1.0 ↗ | a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase | 0.50 | 44.0 | 3.19e-01 | 100.0% | 40.4% |
D2
medium
residues 1-63
Domain cluster:
representative
CATH (8)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1uasA02 | 2.60.40.1180 | Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II | 0.61 | 37.0 | 3.37e-01 | 81.0% | 44.3% |
| 3doaA03 | 3.40.970.40 | Alpha Beta › 3-Layer(aba) Sandwich › Ribonuclease HI; Chain A › fibrinogen binding protein from staphylococcus aureus domain like | 0.58 | 38.0 | 4.44e-01 | 71.4% | 100.0% |
| 5ja1B00 | 3.90.820.10 | Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id | 0.57 | 40.0 | 3.98e-01 | 74.6% | 75.8% |
| 1ltlA03 | 2.20.28.10 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.56 | 39.0 | 4.38e-01 | 81.0% | 95.9% |
| 8h68A01 | 2.60.120.590 | Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like | 0.56 | 38.0 | 2.67e-01 | 82.5% | 20.5% |
| 4pofA03 | 2.20.28.10 | Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › | 0.55 | 39.0 | 4.27e-01 | 79.4% | 94.0% |
| 4pk9A00 | 3.40.1090.10 | Alpha Beta › 3-Layer(aba) Sandwich › Cytosolic phospholipase A2 catalytic domain › Cytosolic phospholipase A2 catalytic domain | 0.53 | 43.0 | 2.80e-01 | 98.4% | 76.9% |
| 2ebnA00 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.52 | 44.0 | 2.91e-01 | 98.4% | 27.7% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4613768 | 7533.1.1.1 ↗ | a/b three-layered sandwiches › Phosphoglycerate kinase domain 2 › Phosphoglycerate kinase domain 2 › Phosphoglycerate kinase domain 2 › PGK | 0.64 | 48.0 | 3.21e-01 | 79.4% | 31.6% |
| 3705470 | 3529.1.1.0 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain | 0.64 | 39.0 | 4.49e-01 | 82.5% | 86.7% |
| 3595896 | 3529.1.1.0 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain | 0.62 | 39.0 | 4.44e-01 | 84.1% | 88.9% |
| 3260939 | 904.1.1.1 ↗ | few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box | 0.60 | 42.0 | 3.46e-01 | 74.6% | 37.6% |
| 3671478 | 2492.1.1.2 ↗ | a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB | 0.57 | 45.0 | 3.76e-01 | 85.7% | 63.6% |
| 3602943 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.57 | 39.0 | 4.31e-01 | 79.4% | 90.0% |
| 4991294 | 375.1.1.58 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › MCM_OB | 0.55 | 41.0 | 4.56e-01 | 82.5% | 100.0% |
| 3167534 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.55 | 41.0 | 3.88e-01 | 79.4% | 98.7% |
| 4220178 | 2.1.1.228 ↗ | beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › MCM_bind | 0.54 | 42.0 | 2.81e-01 | 82.5% | 40.0% |
| 3382922 | 2484.1.1.2 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin | 0.54 | 46.0 | 2.86e-01 | 100.0% | 20.5% |
| 3868570 | 3529.1.1.3 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault_3 | 0.52 | 41.0 | 3.49e-01 | 84.1% | 55.0% |
| 3698836 | 3529.1.1.3 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault_3 | 0.51 | 40.0 | 3.87e-01 | 84.1% | 92.9% |
| 3595911 | 3529.1.1.0 ↗ | beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain | 0.51 | 39.0 | 3.80e-01 | 82.5% | 90.0% |
| 3253644 | 904.1.1.1 ↗ | few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › zf-B_box | 0.51 | 42.0 | 3.67e-01 | 100.0% | 60.0% |