←Back to structures

NC_048147.1__YP_009819211.1__HOV04_gp67__00067

Bact-Vir

NC_048147.1__YP_009819211.1__HOV04_gp67__00067

Identity

Accession:
NC_048147 ↗
Kingdom:
phage

Quality

74.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Lindbergviridae› Carpasinavirus› Xanthomonas_phage_XcP1

TaxID: 2785027

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 2-57
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1e5pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.74 61.0 4.51e-01 98.2% 34.9%
4wfvA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.71 57.0 4.23e-01 91.1% 34.0%
4oddA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.70 59.0 4.34e-01 98.2% 35.6%
3bzwF00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.68 46.0 3.03e-01 71.4% 24.3%
1t3yA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.67 54.0 4.12e-01 89.3% 62.6%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.66 52.0 3.42e-01 89.3% 59.6%
2ob0C01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.66 55.0 4.08e-01 100.0% 38.3%
1t6aA02 3.30.310.120 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Rbstp2229 like protein 0.64 52.0 4.72e-01 100.0% 66.7%
2ra6C00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.64 51.0 3.89e-01 91.1% 35.7%
2oc3A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.64 53.0 3.47e-01 98.2% 19.7%
2fsrA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.63 54.0 3.89e-01 100.0% 33.9%
3ci6B00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.63 51.0 3.84e-01 100.0% 78.8%
1ko2A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.62 53.0 3.54e-01 98.2% 26.5%
1m2xA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.62 52.0 3.55e-01 98.2% 27.9%
3o5yB00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.61 51.0 3.91e-01 100.0% 89.1%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 43.0 3.47e-01 73.2% 40.4%
2hv2A01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 43.0 3.68e-01 75.0% 55.8%
1vkcA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 50.0 3.89e-01 100.0% 45.3%
2d8bA01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.60 51.0 3.88e-01 100.0% 61.4%
1iicA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 49.0 3.63e-01 100.0% 39.9%
1bebA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 49.0 3.67e-01 96.4% 89.1%
1lp9E02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 44.0 4.03e-01 83.9% 58.7%
2dchX02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.59 45.0 3.79e-01 89.3% 81.1%
2hzmG01 3.30.310.180 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.59 45.0 3.74e-01 91.1% 64.3%
1ul7A00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.59 49.0 4.17e-01 100.0% 73.5%
2b0aA00 3.50.30.50 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › Putative cyclase 0.59 40.0 2.81e-01 71.4% 75.3%
6vq6H01 1.10.287.3240 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.58 49.0 3.33e-01 92.9% 32.8%
1xn5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 48.0 3.72e-01 100.0% 76.1%
3k8aB00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 42.0 3.47e-01 80.4% 61.2%
1ms9A01 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.57 48.0 2.95e-01 100.0% 29.3%
3ix3A00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.57 47.0 3.51e-01 100.0% 82.2%
2kvkA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.57 47.0 3.63e-01 100.0% 60.4%
1pu1A00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.56 45.0 4.04e-01 100.0% 78.0%
1c9rA04 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.56 46.0 3.89e-01 100.0% 84.1%
1c8uA02 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.54 41.0 3.38e-01 96.4% 40.9%
4dy0B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.54 42.0 3.43e-01 94.6% 42.2%
4mt4A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.54 39.0 2.31e-01 100.0% 9.3%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.53 38.0 2.76e-01 78.6% 45.8%
1krlA00 6.20.50.130 Special › Other non-globular › N-terminal domain of TfIIb › 0.53 38.0 4.21e-01 89.3% 97.7%
1xp4A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.52 43.0 2.83e-01 94.6% 100.0%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.52 40.0 2.78e-01 83.9% 57.4%
6n8pA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 45.0 2.74e-01 100.0% 24.5%
3voqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 45.0 3.57e-01 100.0% 87.1%
4h40A02 2.60.40.3740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 41.0 3.23e-01 100.0% 96.5%
2qkdA03 2.20.25.420 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › ZPR1, zinc finger domain 0.50 41.0 4.25e-01 89.3% 98.0%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1665018 298.1.1.6 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › G6PD_C 0.66 52.0 3.36e-01 89.3% 62.6%
3960676 298.1.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.66 52.0 3.27e-01 89.3% 56.1%
4978599 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.63 56.0 3.37e-01 100.0% 26.3%
3706357 298.1.1.0 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain 0.62 46.0 3.06e-01 80.4% 60.9%
4181081 2004.1.1.54 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Septin 0.62 44.0 2.84e-01 75.0% 25.3%
3211211 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 51.0 3.88e-01 100.0% 39.4%
5045252 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.62 51.0 4.40e-01 100.0% 74.0%
4444422 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.62 42.0 3.27e-01 71.4% 35.8%
4954522 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.61 52.0 4.48e-01 100.0% 72.3%
3890221 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.61 52.0 3.99e-01 100.0% 61.4%
4111224 223.1.1.3 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.59 48.0 3.64e-01 100.0% 80.6%
4183868 878.1.1.1 ↗ a+b two layers › Hypothetical protein MTH677 › Hypothetical protein MTH677 › Hypothetical protein MTH677 › DUF3194 0.58 48.0 4.42e-01 100.0% 81.0%
3838659 5085.1.1.0 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.58 42.0 2.56e-01 76.8% 54.5%
3797519 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 40.0 2.37e-01 76.8% 17.3%
5049475 2003.6.1.5 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › Phos_pyr_kin 0.58 47.0 3.10e-01 100.0% 55.9%
3579667 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.57 49.0 3.78e-01 100.0% 42.2%
3922917 2004.1.1.54 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Septin 0.57 41.0 2.59e-01 82.1% 17.8%
4982249 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.56 45.0 4.01e-01 100.0% 84.2%
4009814 252.2.1.5 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › Arm-DNA-bind_3 0.56 41.0 3.96e-01 87.5% 67.7%
3905302 284.1.3.8 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › Fy-3 0.55 47.0 4.21e-01 100.0% 72.9%
3417430 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.55 45.0 3.85e-01 100.0% 60.0%
3937258 220.1.1.159 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_met_RdRP 0.55 43.0 2.91e-01 85.7% 51.2%
4018864 5084.5.3.0 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel 0.55 44.0 2.48e-01 89.3% 18.3%
4054500 601.7.1.40 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Cas13a_C 0.55 48.0 2.77e-01 100.0% 12.3%
3283248 246.2.1.0 ↗ a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases 0.54 47.0 2.94e-01 100.0% 21.5%
3961814 604.2.1.1 ↗ alpha bundles › Spectrin repeat-like › Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain › Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain › Succ_DH_flav_C 0.54 43.0 3.23e-01 89.3% 54.5%
3430114 327.11.2.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.54 44.0 4.26e-01 98.2% 92.3%
3497120 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 40.0 3.40e-01 92.9% 48.4%
3573974 2.1.1.45 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › gp32 0.53 37.0 2.58e-01 71.4% 83.7%
3696503 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 40.0 2.52e-01 85.7% 25.6%
3480623 284.1.3.0 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain 0.53 46.0 4.13e-01 100.0% 73.4%
3988421 223.3.1.2 ↗ a+b three layers › Profilin-like › a+b domain in beta-lactamase/transpeptidase-like proteins › a+b domain in beta-lactamase/transpeptidase-like proteins › Peptidase_S11 0.52 42.0 3.21e-01 96.4% 94.2%
5020439 810.1.1.2 ↗ a+b two layers › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) › BtrG-like (Pfam 03674) › GGACT 0.52 46.0 3.55e-01 100.0% 59.2%
3238923 101.1.2.394 ↗ alpha arrays › HTH › HTH › winged helix domain › eWH_GTF3C1 0.52 46.0 2.64e-01 100.0% 19.6%
3867539 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 41.0 2.89e-01 100.0% 71.7%
5048881 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.51 45.0 3.25e-01 100.0% 59.1%
None — 0.51 43.0 2.77e-01 100.0% 19.6%
3827046 284.1.3.1 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › SNF5 0.51 44.0 3.85e-01 100.0% 78.9%
5070684 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 40.0 2.93e-01 100.0% 80.5%
4990017 221.4.1.1 ↗ a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.50 39.0 2.89e-01 91.1% 79.4%