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NC_047887.1__YP_009795215.1__HOS40_gp008__00008

Bact-Vir

NC_047887.1__YP_009795215.1__HOS40_gp008__00008

Identity

Accession:
NC_047887 ↗
Kingdom:
phage

Quality

89.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Demerecviridae› Hongcheonvirus› Pectobacterium_phage_DU_PP_V

TaxID: 2041492

Cluster

View cluster (6 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 6-64
PDB
Domain cluster: rep: NC_019542.1__YP_007010644.1__F486_gp01__00001__D3-52
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7wq5A01 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.80 56.0 5.70e-01 74.6% 91.4%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.73 47.0 5.48e-01 74.6% 100.0%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.72 55.0 4.89e-01 84.7% 95.5%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.69 55.0 5.36e-01 88.1% 89.4%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.67 53.0 4.11e-01 86.4% 90.8%
3a43A01 3.30.2320.50 Alpha Beta › 2-Layer Sandwich › hypothetical protein PF0899 fold › 0.64 45.0 4.18e-01 100.0% 55.7%
2jwkA00 3.30.420.270 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.63 48.0 4.56e-01 91.5% 68.9%
2qlcA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.60 48.0 3.86e-01 93.2% 84.1%
2dy1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 41.0 2.72e-01 72.9% 43.3%
3ak5D02 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.59 46.0 2.61e-01 86.4% 7.4%
2yzsA01 3.100.10.20 Alpha Beta › Ribosomal Protein L15; Chain: K; domain 2 › Ribosomal Protein L15; Chain: K; domain 2 › CRISPR-associated endonuclease Cas1, N-terminal domain 0.59 39.0 3.58e-01 88.1% 51.2%
5bulA00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 40.0 2.47e-01 71.2% 40.8%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 51.0 4.47e-01 100.0% 80.2%
3h09B02 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.57 45.0 2.63e-01 86.4% 11.0%
2es7A00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.57 41.0 3.49e-01 100.0% 45.6%
4h0oA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.55 44.0 3.25e-01 93.2% 92.1%
5l16A01 3.30.1330.10 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › PurM-like, N-terminal domain 0.55 40.0 3.31e-01 100.0% 39.0%
7ywdB01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 40.0 3.43e-01 76.3% 80.9%
1wghA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 39.0 3.61e-01 79.7% 90.4%
3mwmA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.55 37.0 3.89e-01 83.1% 78.8%
2xrfC00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.54 46.0 2.91e-01 91.5% 28.7%
2p6rA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 47.0 3.28e-01 100.0% 95.9%
2xigA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.53 37.0 3.80e-01 88.1% 78.2%
4rayA02 3.30.1490.190 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ferric-uptake regulator, C-terminal dimerisarion domain 0.53 37.0 3.99e-01 93.2% 88.0%
3fd9A02 1.20.1270.190 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.52 40.0 3.53e-01 88.1% 100.0%
3c6cA00 3.20.20.70 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Aldolase class I 0.52 42.0 2.84e-01 100.0% 85.7%
1gpmA03 3.30.300.10 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.52 40.0 3.44e-01 96.6% 50.0%
4obxA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.52 45.0 3.03e-01 98.3% 78.3%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.51 35.0 2.83e-01 71.2% 42.2%
3uwpA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 41.0 2.88e-01 94.9% 69.5%
2j5bB01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.51 44.0 3.10e-01 100.0% 52.8%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4321937 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.84 53.0 4.86e-01 74.6% 50.7%
3178127 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.83 52.0 5.65e-01 74.6% 76.0%
3949260 4120.1.1.0 ↗ few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP 0.81 62.0 4.98e-01 81.4% 86.4%
5004725 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.80 64.0 5.25e-01 86.4% 86.7%
3964438 11.1.1.404 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF4390 0.76 59.0 4.12e-01 81.4% 38.5%
4568757 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.73 59.0 5.93e-01 89.8% 98.3%
3398039 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.70 50.0 5.51e-01 84.7% 100.0%
4323662 4100.1.1.8 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF5395 0.69 57.0 5.24e-01 96.6% 68.8%
4945896 2003.1.2.300 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › GGR_cat 0.67 46.0 2.73e-01 84.7% 10.6%
3516319 7575.1.1.0 ↗ a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like 0.67 44.0 3.19e-01 89.8% 22.9%
3238074 207.1.1.81 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.65 53.0 3.52e-01 88.1% 26.8%
3996219 2003.1.1.72 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › GDP_Man_Dehyd 0.64 46.0 2.85e-01 76.3% 56.8%
3979017 327.11.1.0 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) 0.63 44.0 4.14e-01 74.6% 85.3%
184694 2484.6.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Periplasmic domain of ExbD/TolR › Periplasmic domain of ExbD/TolR 0.63 48.0 4.56e-01 91.5% 68.9%
5003530 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.63 50.0 3.86e-01 88.1% 78.6%
4954188 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.62 49.0 3.77e-01 89.8% 73.2%
5020151 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.62 49.0 3.82e-01 89.8% 80.7%
3386854 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 53.0 3.67e-01 98.3% 92.7%
5065878 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.61 48.0 3.70e-01 89.8% 74.5%
4930766 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.60 49.0 3.85e-01 93.2% 82.2%
4525369 2484.1.1.6 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FGGY_N 0.60 50.0 3.61e-01 91.5% 44.4%
4930177 11.1.1.1443 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF29994 0.60 51.0 4.08e-01 100.0% 72.8%
3926708 5051.1.1.1 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › SNF 0.59 47.0 2.76e-01 89.8% 40.8%
5052723 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 46.0 4.27e-01 89.8% 98.8%
3692310 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.59 47.0 3.65e-01 93.2% 84.7%
3961091 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 44.0 3.60e-01 86.4% 58.3%
3719720 220.1.1.12 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Myosin_TH1 0.58 50.0 2.99e-01 100.0% 13.3%
3188180 2004.1.1.36 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.57 47.0 2.92e-01 93.2% 18.8%
3587226 2004.1.1.422 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1, RsgA_GTPase 0.57 49.0 3.44e-01 94.9% 40.0%
3250881 220.1.1.125 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_PLEKHM2 0.57 46.0 3.37e-01 89.8% 34.4%
3520514 2002.1.1.30 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_18 0.57 43.0 2.67e-01 83.1% 36.3%
4080507 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.56 47.0 3.92e-01 100.0% 94.8%
3177941 221.1.1.51 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › USP7_C2 0.56 42.0 3.45e-01 83.1% 76.5%
3750184 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.54 43.0 3.98e-01 86.4% 68.0%
3245132 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.53 38.0 2.99e-01 76.3% 83.1%
5015831 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.53 42.0 3.29e-01 89.8% 53.3%
3947863 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.53 40.0 2.77e-01 89.8% 61.6%
167037 2002.1.1.139 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › BKACE 0.52 42.0 2.84e-01 100.0% 85.7%
3814126 4263.2.1.0 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain 0.52 41.0 3.71e-01 88.1% 67.1%
3315415 4263.2.1.0 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain 0.52 41.0 3.27e-01 88.1% 45.6%
4382081 304.111.1.1 ↗ a+b two layers › Alpha-beta plaits › PurM C-terminal domain-like › PurM C-terminal domain-like › AIRS_C 0.52 42.0 3.10e-01 96.6% 69.1%
3175410 109.4.1.3460 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF30192 0.52 37.0 2.64e-01 78.0% 49.3%
4989431 2004.1.1.97 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MobB 0.51 38.0 2.71e-01 84.7% 33.0%
4666011 4263.2.1.0 ↗ a+b two layers › TTHA1528-like › FtsH Periplasmic Domain › FtsH Periplasmic Domain 0.51 44.0 4.02e-01 98.3% 72.5%
3253635 207.1.1.116 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_FBXL15 0.50 36.0 2.27e-01 83.1% 17.3%
1284299 101.1.2.25 ↗ alpha arrays › HTH › HTH › winged helix domain › FUR 0.50 35.0 2.72e-01 76.3% 44.5%
4155276 301.9.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › HypA Ni-binding domain › HypA Ni-binding domain › HypA 0.50 42.0 3.81e-01 100.0% 74.1%