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NC_049380.1__YP_009876274.1__HYP07_gp049__00049

Bact-Vir

NC_049380.1__YP_009876274.1__HYP07_gp049__00049

Identity

Accession:
NC_049380 ↗
Kingdom:
phage

Quality

88.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Pacinivirus› Vibrio_phage_JSF3

TaxID: 1916111

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 8-29_137-200
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18757.7 best Nmad5 37.2 4.70e-09 79.1% 27.2%
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wgfA01 1.10.30.10 Mainly Alpha › Orthogonal Bundle › DNA Binding (I), subunit A › High mobility group box domain 0.57 34.0 4.10e-01 79.1% 96.2%
2bg1A01 3.90.1310.40 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › 0.56 40.0 4.19e-01 74.4% 90.9%
6h5hA00 1.10.150.110 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › DNA polymerase beta, N-terminal domain-like 0.56 41.0 4.34e-01 83.7% 94.4%
6rzqA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.54 43.0 4.34e-01 86.0% 97.6%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3507622 143.1.1.1 ↗ alpha arrays › PABP domain-like › PABC(PABP) domain › PABC(PABP) domain › PABP 0.65 35.0 3.76e-01 70.9% 58.7%
D2 high residues 35-125
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5x68A00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.62 48.0 3.27e-01 83.5% 87.3%
1m6eX02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 47.0 3.63e-01 93.4% 43.0%
2cyeC00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 38.0 3.36e-01 72.5% 80.3%
4j31A00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 42.0 2.89e-01 86.8% 86.9%
3ds8A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 38.0 2.79e-01 79.1% 61.7%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5062442 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.68 53.0 3.42e-01 84.6% 77.7%
4980968 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.68 53.0 3.49e-01 84.6% 79.0%
4993758 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.67 53.0 3.44e-01 84.6% 78.3%
4996392 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.65 50.0 3.29e-01 83.5% 77.9%
None — 0.64 49.0 3.19e-01 82.4% 76.6%
4428246 2003.1.2.16 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.64 49.0 3.14e-01 84.6% 70.9%
5000055 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.63 49.0 3.27e-01 83.5% 83.5%
5074448 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.63 48.0 3.18e-01 82.4% 78.5%
5078994 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.63 49.0 3.25e-01 84.6% 77.7%
3313182 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.61 32.0 3.63e-01 89.0% 65.7%
4295220 2003.1.2.109 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_2, FAD_binding_3, GGR_cat 0.59 45.0 3.00e-01 83.5% 76.1%
4935599 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.57 44.0 2.92e-01 84.6% 73.6%
4935597 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.57 44.0 2.97e-01 84.6% 80.5%
3615159 244.1.1.11 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › SE 0.56 43.0 2.80e-01 84.6% 58.4%
3595218 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.56 43.0 2.82e-01 84.6% 59.5%
3702140 2003.1.2.27 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › SE 0.56 43.0 2.82e-01 84.6% 60.9%
3652692 2485.1.1.86 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Alba 0.56 32.0 2.54e-01 80.2% 26.5%
4809699 3781.1.1.1 ↗ a+b two layers › Ribosomal protein L11/L12e N-terminal domain-like › Ribosomal protein L11/L12e N-terminal domain › Ribosomal protein L11/L12e N-terminal domain › Ribosomal_L11_N 0.56 28.0 3.18e-01 84.6% 63.1%
3734989 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.54 48.0 3.55e-01 100.0% 62.4%
4030495 331.3.1.4 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › IP_trans 0.53 44.0 3.26e-01 94.5% 82.6%
4415556 331.10.2.1 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase › AdoMet_dc 0.51 39.0 3.01e-01 81.3% 86.7%
5884 327.1.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Alpha-lytic protease prodomain › Alpha-lytic protease prodomain 0.51 34.0 3.64e-01 72.5% 78.8%
3220597 7515.1.1.5 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Sulfatase,SGSH_C 0.50 44.0 2.74e-01 100.0% 47.1%
4997289 3692.1.1.1 ↗ a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › OCD_Mu_crystall 0.50 36.0 3.35e-01 78.0% 90.2%
3720466 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.50 42.0 2.98e-01 91.2% 77.5%