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NC_048767.1__YP_009845971.1__HWC23_gp37__00037

Bact-Vir

NC_048767.1__YP_009845971.1__HWC23_gp37__00037

Identity

Accession:
NC_048767 ↗
Kingdom:
phage

Quality

91.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Dibbivirus› Pantoea_phage_vB_PagM_PSKM

TaxID: 2588094

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 5-116
PDB
Domain cluster: rep: MK335533.1__QAX92071.1__vBSsoS008_064__00064__D4-83
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08273.18 best Zn_Ribbon_Prim 52.0 9.80e-14 39.3% 100.0%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1d0qA00 3.90.580.10 Alpha Beta › Alpha-Beta Complex › DNA Primase; Chain A › Zinc finger, CHC2-type domain 0.76 59.0 6.15e-01 91.1% 89.2%
5f64A02 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 25.0 3.05e-01 73.2% 52.0%
3f5dA00 3.40.50.880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Class I glutamine amidotransferase (GATase) domain 0.58 45.0 3.80e-01 83.0% 91.7%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3942532 375.1.1.39 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon 0.90 67.0 7.62e-01 85.7% 100.0%
3946622 375.1.1.39 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon 0.87 67.0 7.49e-01 88.4% 100.0%
3943026 375.1.1.39 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Prim_Zn_Ribbon 0.87 68.0 6.89e-01 83.9% 82.6%
8015 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.76 59.0 6.15e-01 91.1% 89.2%
4680318 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.76 57.0 6.21e-01 87.5% 96.7%
4166935 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.74 60.0 6.29e-01 91.1% 96.0%
4539347 375.1.1.15 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-CHC2 0.72 57.0 6.04e-01 92.0% 95.0%
3664072 109.1.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C 0.51 40.0 3.24e-01 86.6% 77.3%
D2 high residues 128-314
PDB
Domain cluster: rep: MN313256.1__QGJ84312.1__X__00026__D119-268
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dstA00 3.40.50.12270 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 38.0 4.58e-01 79.7% 97.5%
3dv9A01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.59 33.0 3.46e-01 85.0% 58.2%
4uavA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.56 31.0 3.38e-01 84.5% 61.5%
4ex6A01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.56 32.0 3.54e-01 89.8% 67.8%
3e58B01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.55 31.0 3.42e-01 87.7% 67.3%
2fdrA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.54 33.0 3.53e-01 88.2% 70.3%
7ef6A01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.54 33.0 3.54e-01 88.2% 70.4%
4g9bA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.53 30.0 3.36e-01 90.9% 68.2%
1ynsA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.53 30.0 3.35e-01 87.7% 66.7%
3jyhA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 39.0 3.33e-01 80.2% 97.7%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4946248 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.65 42.0 4.87e-01 71.1% 88.9%
4089575 2006.1.3.7 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_4 0.65 41.0 5.09e-01 70.1% 100.0%
4675929 2006.1.3.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 0.61 40.0 4.92e-01 93.6% 100.0%
4305698 2006.1.3.6 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim_2 0.60 40.0 4.80e-01 93.6% 100.0%