←Back to structures

NC_028829.1__YP_009201218.1__AVU32_gp115__00115

Bact-Vir

NC_028829.1__YP_009201218.1__AVU32_gp115__00115

Identity

Accession:
NC_028829 ↗
Kingdom:
phage

Quality

83.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Schizotequatrovirus› Vibrio_phage_ValKK3

TaxID: 1610855

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 21-106
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1st6A03 1.20.120.810 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle 0.70 58.0 4.24e-01 90.7% 69.4%
3d2eA06 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.60 47.0 4.34e-01 86.0% 70.8%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.58 44.0 4.66e-01 80.2% 94.6%
6l3tA01 1.20.1440.80 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Gap junction channel protein cysteine-rich domain 0.58 49.0 3.88e-01 97.7% 90.5%
3cxbA01 3.30.2440.10 Alpha Beta › 2-Layer Sandwich › Secreted effector protein SifA fold › Secreted effector protein SifA 0.58 48.0 4.40e-01 93.0% 80.9%
1pprM01 1.40.10.10 Mainly Alpha › Alpha solenoid › Peridinin-chlorophyll Protein, Chain M › Peridinin-chlorophyll A binding 0.57 49.0 4.09e-01 97.7% 80.6%
3broD00 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 0.56 39.0 3.40e-01 73.3% 87.3%
4oloB00 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.55 33.0 3.40e-01 96.5% 59.5%
3e9lA02 1.20.80.40 Mainly Alpha › Up-down Bundle › Acyl-CoA Binding Protein › Prp8 RNase H domain, fingers region 0.55 45.0 4.43e-01 91.9% 94.7%
3c7jA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.55 41.0 3.50e-01 80.2% 88.4%
3oq2A00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 44.0 4.23e-01 98.8% 76.8%
4zbwA02 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.54 44.0 4.44e-01 90.7% 97.7%
4fqnC00 1.20.1160.20 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › 0.54 41.0 4.19e-01 94.2% 85.9%
1zkrB00 1.20.920.50 Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › 0.54 42.0 3.72e-01 91.9% 93.8%
2gxgA00 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 0.53 38.0 3.31e-01 76.7% 89.3%
3zmdA00 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 0.52 36.0 3.15e-01 73.3% 82.4%
3im8A02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.52 39.0 4.15e-01 98.8% 93.2%
2j3wC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 36.0 3.22e-01 74.4% 91.1%
4xrfA00 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 0.52 36.0 3.10e-01 72.1% 77.5%
3pamB00 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.52 42.0 3.07e-01 89.5% 78.8%
1sg6A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.52 41.0 3.27e-01 90.7% 51.3%
5e1wA00 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 0.52 39.0 3.20e-01 81.4% 85.1%
4jd9G00 1.10.238.20 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › Pheromone/general odorant binding protein domain 0.51 43.0 3.90e-01 94.2% 82.5%
4unfA02 1.10.340.30 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Hypothetical protein; domain 2 0.51 34.0 3.11e-01 86.0% 48.7%
2fbhA00 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 0.51 35.0 3.07e-01 70.9% 73.0%
2op5B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 43.0 4.15e-01 96.5% 98.0%
6z74C02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.50 41.0 3.49e-01 95.3% 59.1%
ECOD (26)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3693836 601.18.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 0.67 50.0 3.95e-01 80.2% 85.4%
3456656 3525.1.1.1 ↗ alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › BET 0.60 43.0 4.86e-01 76.7% 100.0%
3856774 110.1.1.18 ↗ alpha arrays › DEATH domain › DEATH domain › DEATH domain › Death_Lrrd1 0.58 49.0 4.13e-01 96.5% 93.5%
3892180 327.16.1.13 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › KH_PARP14_2 0.58 35.0 4.06e-01 88.4% 88.3%
3582590 3291.1.1.9 ↗ alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › DUF2371 0.58 42.0 3.80e-01 77.9% 92.5%
3504887 3525.1.1.2 ↗ alpha arrays › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › Bromodomain-containing protein 4 ET domain › AHD 0.57 38.0 4.43e-01 73.3% 100.0%
3220023 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.57 48.0 4.09e-01 97.7% 90.0%
3327188 376.1.1.100 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › PF26148 0.57 43.0 3.76e-01 82.6% 66.7%
3649284 108.1.1.23 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › RST 0.56 46.0 4.80e-01 90.7% 98.8%
5015009 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.56 48.0 4.86e-01 97.7% 100.0%
4566910 4337.1.1.0 ↗ a+b two layers › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain 0.56 47.0 4.65e-01 96.5% 86.7%
3223770 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.55 42.0 4.63e-01 81.4% 98.6%
3280490 628.1.1.1 ↗ alpha bundles › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › FCD 0.55 43.0 3.66e-01 84.9% 56.6%
3566248 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.55 41.0 4.13e-01 98.8% 77.8%
3284055 628.1.1.1 ↗ alpha bundles › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › FCD 0.54 42.0 3.61e-01 83.7% 81.4%
3624104 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.53 39.0 4.11e-01 96.5% 91.8%
3971340 628.1.1.1 ↗ alpha bundles › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › Fatty acid responsive transcription factor FadR, C-terminal domain › FCD 0.53 40.0 3.22e-01 81.4% 79.4%
3612305 3573.1.1.1 ↗ alpha arrays › Histone RNA hairpin-binding protein RNA-binding domain › Histone RNA hairpin-binding protein RNA-binding domain › Histone RNA hairpin-binding protein RNA-binding domain › SLBP_RNA_bind 0.53 38.0 3.88e-01 75.6% 82.7%
3439467 241.6.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Arp2/3 complex subunits › Arp2/3 complex subunits 0.53 39.0 3.45e-01 80.2% 88.5%
3412389 101.1.10.33 ↗ alpha arrays › HTH › HTH › Cyclin-like › Rrn7_cyclin_C 0.52 42.0 3.43e-01 94.2% 98.9%
3529972 327.16.1.6 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › DTX3L_a-b 0.52 35.0 3.85e-01 83.7% 87.1%
3887760 108.1.1.99 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › EF-hand_5, EF-hand_6, EF-hand_7 0.52 40.0 3.90e-01 86.0% 95.0%
3287925 101.1.2.15 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR 0.51 38.0 3.21e-01 80.2% 88.4%
4244677 304.110.1.1 ↗ a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like › Acylphosphatase 0.51 41.0 4.15e-01 97.7% 87.5%
3252416 304.57.1.1 ↗ a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › RNase_P_Rpp14 0.51 43.0 3.97e-01 100.0% 75.8%
4203113 101.1.2.281 ↗ alpha arrays › HTH › HTH › winged helix domain › Tfb2 0.50 35.0 3.40e-01 72.1% 72.6%