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NC_048765.1__YP_009845671.1__HWC21_gp015__00015

Bact-Vir

NC_048765.1__YP_009845671.1__HWC21_gp015__00015

Identity

Accession:
NC_048765 ↗
Kingdom:
phage

Quality

92.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Vapseptimavirus› Vibrio_phage_VAP7

TaxID: 2584487

Cluster

View cluster (40 members)

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 138-217
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF12322.15 best T4_baseplate 44.7 1.90e-11 98.8% 32.0%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1s3iA02 3.10.25.10 Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 › Formyl transferase, C-terminal domain 0.53 36.0 3.40e-01 72.5% 73.5%
2fpnA02 3.30.360.40 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › YwmB-like 0.52 36.0 3.89e-01 73.8% 89.2%
2awnC02 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.50 34.0 3.45e-01 70.0% 88.5%
D2 medium residues 12-91
PDB
Domain cluster: rep: IMGVR_UViG_3300014934_000024-3300014934-Ga0169773_1017706__D5-85
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF12322.15 best T4_baseplate 50.8 2.70e-13 98.8% 31.5%
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ob9A00 3.30.2220.20 Alpha Beta › 2-Layer Sandwich › rbstp2171 › Phage tail assembly chaperone gp13-like 0.78 72.0 6.47e-01 100.0% 85.0%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.64 45.0 4.25e-01 72.5% 74.7%
3anwB00 1.20.58.2050 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.62 35.0 2.74e-01 93.8% 26.5%
8alzB08 1.10.3380.10 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain 0.62 45.0 3.89e-01 78.8% 81.7%
7yb9A01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 42.0 3.02e-01 71.2% 32.1%
1xttB00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 50.0 3.77e-01 100.0% 89.4%
2c0kB00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.57 42.0 3.50e-01 80.0% 91.9%
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 50.0 3.73e-01 100.0% 87.5%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 49.0 3.68e-01 98.8% 87.5%
1bd3A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 49.0 3.54e-01 100.0% 83.5%
1p4wA00 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 0.55 46.0 4.56e-01 96.2% 87.4%
3bjdA01 1.10.1240.20 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Lytic transglycosylase, superhelical linker domain 0.54 37.0 3.61e-01 78.8% 63.6%
3hibA01 1.10.3380.10 Mainly Alpha › Orthogonal Bundle › Sec63 N-terminal domain-like fold › Sec63 N-terminal domain-like domain 0.54 41.0 3.63e-01 81.2% 93.2%
2lhrA00 1.20.58.1270 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.54 30.0 3.03e-01 72.5% 52.6%
4hojA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.53 40.0 3.66e-01 78.8% 82.5%
4hzuS00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.52 45.0 3.67e-01 100.0% 83.5%
3fbzA01 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 46.0 4.25e-01 100.0% 83.3%
3lqhA02 1.20.920.10 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like 0.52 36.0 3.29e-01 72.5% 61.3%
1fafA00 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.51 34.0 3.50e-01 98.8% 70.9%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4954554 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.82 76.0 6.86e-01 100.0% 85.7%
3944499 6050.1.1.0 ↗ a+b two layers › Phage tail assembly chaperone › Phage tail assembly chaperone › Phage tail assembly chaperone 0.73 65.0 6.45e-01 100.0% 95.3%
3278077 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.69 35.0 4.02e-01 71.2% 66.7%
3913418 4156.1.1.4 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › HA2_C 0.59 45.0 3.66e-01 80.0% 72.0%
4483775 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.59 52.0 3.84e-01 98.8% 86.7%
4402684 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.58 51.0 3.78e-01 98.8% 89.0%
3731979 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.58 51.0 3.77e-01 100.0% 88.4%
3744609 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.57 50.0 3.81e-01 100.0% 84.4%
3979958 3009.1.1.0 ↗ alpha arrays › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like › Insertion subdomain in DsbA-like 0.56 38.0 3.76e-01 70.0% 67.4%
3170740 220.1.1.83 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › VID27_N 0.56 42.0 3.30e-01 82.5% 44.7%
3690229 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.56 48.0 3.62e-01 98.8% 87.9%
3960904 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.56 49.0 3.34e-01 98.8% 65.0%
4934221 148.1.3.20 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_2 0.56 44.0 4.67e-01 93.8% 100.0%
5039661 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.54 45.0 3.94e-01 93.8% 64.8%
4997973 148.1.3.20 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_2 0.52 42.0 3.78e-01 90.0% 66.1%
3194654 109.4.1.308 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Vps39_1 0.52 37.0 2.46e-01 75.0% 20.6%
3349457 109.4.1.420 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.52 37.0 3.42e-01 75.0% 72.4%
4570244 633.24.1.5 ↗ alpha bundles › Bromodomain-like › RABEX-5 helical domain › RABEX-5 helical domain › PF29080 0.51 39.0 3.87e-01 87.5% 87.8%
3259874 109.4.1.471 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › GCFC 0.51 36.0 2.29e-01 73.8% 21.9%
3270794 609.1.1.1 ↗ alpha bundles › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › Domain of poly(ADP-ribose) polymerase › PARP_reg 0.50 44.0 3.80e-01 100.0% 64.6%
D3 medium residues 94-124_223-247
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1cx8A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.58 45.0 2.99e-01 94.6% 36.5%
3awmA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.56 41.0 2.55e-01 85.7% 70.3%
8fbcA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 40.0 2.50e-01 82.1% 70.2%
3mgxB00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.53 43.0 2.69e-01 98.2% 58.6%
8amqA02 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.53 38.0 2.43e-01 82.1% 69.6%
3bujA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.53 41.0 2.59e-01 94.6% 59.4%
5hiwA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.51 41.0 2.57e-01 98.2% 60.1%
5tw4A02 2.30.140.20 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Penicillin-binding protein 4, C-terminal domain 0.51 37.0 3.50e-01 80.4% 98.6%
3px5A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 40.0 3.37e-01 98.2% 94.8%
2bh8B01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 33.0 3.37e-01 87.5% 69.1%
4lxjA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 40.0 2.55e-01 98.2% 72.1%
2uuqA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 39.0 2.42e-01 89.3% 31.5%
4uhiA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.50 36.0 2.27e-01 85.7% 71.3%
ECOD (11)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3604320 375.1.1.50 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zinc_ribbon_4 0.76 52.0 5.89e-01 89.3% 100.0%
3782781 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.69 43.0 4.90e-01 78.6% 90.0%
3271036 375.3.1.1 ↗ few secondary structure elements › Rubredoxin-like › CSL zinc finger › CSL zinc finger › zf-DNL 0.67 59.0 5.07e-01 100.0% 85.4%
4936927 67.1.1.1 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › DnaJ_C 0.65 54.0 4.43e-01 96.4% 56.4%
4026196 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.64 52.0 5.13e-01 100.0% 88.3%
4009783 205.1.1.0 ↗ a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin 0.60 46.0 3.26e-01 85.7% 83.2%
3633198 67.1.1.0 ↗ beta sandwiches › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain › HSP40/DnaJ peptide-binding domain 0.60 49.0 4.34e-01 98.2% 74.4%
3397147 11.1.1.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_N 0.55 43.0 3.35e-01 92.9% 86.2%
4466937 11.1.1.248 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › bMG6 0.53 43.0 3.47e-01 100.0% 83.1%
3957920 149.1.1.1 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 › p450 0.52 40.0 2.59e-01 92.9% 81.5%
2761575 51.1.1.2 ↗ beta sandwiches › Penicillin-binding protein associated domain › Penicillin-binding protein associated domain › Penicillin-binding protein associated domain › DUF1958 0.50 36.0 3.46e-01 80.4% 98.6%