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NC_015721.1__YP_004678842.1__BdPhPhi1402_gp15__00015

Bact-Vir

NC_015721.1__YP_004678842.1__BdPhPhi1402_gp15__00015

Identity

Accession:
NC_015721 ↗
Kingdom:
phage

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bdellovibrio_phage_phi1402

TaxID: 1035662

Cluster

View cluster (7 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 medium residues 1-71
PDB
Domain cluster: rep: OP172633.1__WAX05116.1__AB434P2_00043__00038__D17-94
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6xgqb01 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.80 57.0 5.20e-01 74.6% 65.6%
3cp7B02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.64 43.0 3.77e-01 76.1% 46.7%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.62 47.0 4.13e-01 85.9% 54.2%
1fx0B01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.60 42.0 4.08e-01 76.1% 65.8%
1wu2A04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.58 43.0 4.24e-01 80.3% 97.4%
2ehrA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.57 41.0 3.55e-01 77.5% 82.9%
1f39A00 2.10.109.10 Mainly Beta › Ribbon › Umud Fragment, subunit A › Umud Fragment, subunit A 0.55 37.0 3.35e-01 70.4% 96.0%
2eeiA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.54 39.0 3.42e-01 76.1% 81.1%
3u2gA02 2.60.98.40 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › DU1608 C-terminal domain 0.53 38.0 3.17e-01 76.1% 75.2%
3r0hG01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.53 38.0 3.45e-01 77.5% 90.1%
1g8lA04 2.40.340.10 Mainly Beta › Beta Barrel › Beta-clip › MoeA, C-terminal, domain IV 0.53 36.0 3.65e-01 74.6% 98.6%
2bm0A02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.51 37.0 3.36e-01 78.9% 59.2%
1ufxA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.51 38.0 3.47e-01 83.1% 90.3%
2e7kA00 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.51 36.0 3.34e-01 74.6% 90.1%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3981037 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.81 57.0 6.44e-01 73.2% 100.0%
2640772 70.4.1.1 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › HDPD 0.78 60.0 5.26e-01 80.3% 65.0%
5083817 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.77 53.0 5.60e-01 71.8% 100.0%
2559744 70.4.1.2 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_head_fibr 0.74 53.0 5.72e-01 74.6% 89.8%
5002645 70.4.1.0 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) 0.74 52.0 5.63e-01 73.2% 98.3%
3996398 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.71 46.0 4.38e-01 76.1% 56.5%
3970970 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.65 47.0 4.62e-01 76.1% 100.0%
4072484 1.1.8.7 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › YgfZ_barrel 0.64 46.0 4.27e-01 77.5% 60.0%
5064178 1.1.13.73 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › PUA 0.64 47.0 5.05e-01 78.9% 93.3%
3596757 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 42.0 3.71e-01 77.5% 47.6%
1176847 70.1.1.1 ↗ beta barrels › beta-clip › MoeA C-terminal domain-like › MoeA C-terminal domain-like › MoeA_C 0.58 43.0 4.26e-01 80.3% 97.4%
2141907 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.58 48.0 3.58e-01 95.8% 89.4%
3897867 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.58 42.0 3.60e-01 77.5% 75.7%
5023381 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 41.0 4.09e-01 77.5% 96.0%
3356352 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.56 38.0 3.68e-01 90.1% 62.5%
3486709 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.55 41.0 3.48e-01 78.9% 72.3%
3562914 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.55 42.0 3.73e-01 83.1% 84.8%
4001508 7.1.1.1 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ 0.54 43.0 3.46e-01 87.3% 77.9%
4026390 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.54 42.0 3.47e-01 87.3% 55.6%
4980090 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.50 37.0 3.58e-01 78.9% 78.8%
D2 medium residues 72-151
PDB
Domain cluster: rep: OX241425.1__CAH9011400.1__VP236O401_P0012__00012__D78-150
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3h7tB01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.64 39.0 3.36e-01 95.0% 39.3%
5fahA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.61 41.0 3.62e-01 98.8% 47.0%
1buiA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.59 40.0 3.52e-01 97.5% 45.2%
1c5eA00 2.40.300.10 Mainly Beta › Beta Barrel › Virus Head Decoration Protein; Chain: A, › Head decoration protein D 0.58 52.0 4.96e-01 100.0% 91.6%
2olgA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.58 39.0 3.53e-01 97.5% 49.6%
1kjzA03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.53 38.0 3.63e-01 100.0% 65.2%
2qf4A02 2.40.10.350 Mainly Beta › Beta Barrel › Thrombin, subunit H › Rod shape-determining protein MreC, domain 2 0.52 46.0 4.44e-01 98.8% 98.9%
2bhgA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.50 34.0 3.30e-01 98.8% 60.9%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3945811 70.4.1.7 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › XM1_gp53_minor_capsid 0.73 51.0 5.80e-01 92.5% 96.7%
3513462 70.4.1.8 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement 0.73 52.0 5.83e-01 96.2% 100.0%
4366483 1.1.7.17 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.61 41.0 4.06e-01 100.0% 64.7%
4668791 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.55 37.0 3.44e-01 100.0% 53.3%
4952455 1.1.8.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › eIF2_C 0.53 38.0 3.71e-01 100.0% 67.4%
3630634 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 36.0 3.34e-01 100.0% 55.2%