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NC_051739.1__YP_009965184.1__I5J50_gp61__00061

Bact-Vir

NC_051739.1__YP_009965184.1__I5J50_gp61__00061

Identity

Accession:
NC_051739 ↗
Kingdom:
phage

Quality

72.3 mean pLDDT

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 42-95
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2hxoA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.86 56.0 4.04e-01 100.0% 25.7%
3rlbA00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.68 53.0 3.72e-01 98.1% 26.1%
4yzgA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.60 52.0 3.28e-01 100.0% 18.4%
4jioA01 1.20.120.560 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › alix/aip1 in complex with the ypdl late domain 0.60 46.0 3.40e-01 88.9% 73.3%
2dk8A01 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 0.58 35.0 3.38e-01 94.4% 49.2%
4e6nA02 6.10.140.1010 Special › Helix non-globular › Helix Hairpins › 0.57 40.0 3.86e-01 77.8% 72.7%
2optA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.56 45.0 3.45e-01 100.0% 35.4%
4xchA00 3.30.1360.80 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › S-ribosylhomocysteinase (LuxS) 0.56 41.0 3.03e-01 79.6% 81.2%
1dc7A00 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 42.0 3.37e-01 92.6% 100.0%
1zbuB01 1.10.720.30 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › SAP domain 0.53 42.0 3.91e-01 96.3% 67.6%
2yguC00 1.10.238.190 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › 0.53 42.0 3.47e-01 98.1% 77.1%
1grjA01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.53 39.0 3.61e-01 83.3% 62.2%
4hstB03 1.10.1400.10 Mainly Alpha › Orthogonal Bundle › Penicillin amidase (Acylase) alpha subunit, N-terminal domain › Aminohydrolase, alpha-helical knob region 0.52 42.0 3.32e-01 96.3% 66.7%
4fgoA00 3.10.620.30 Alpha Beta › Roll › C8orf32 fold › 0.52 42.0 3.04e-01 96.3% 33.1%
4okvE00 6.10.140.1890 Special › Helix non-globular › Helix Hairpins › 0.51 41.0 3.98e-01 96.3% 83.1%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 40.0 3.35e-01 94.4% 66.4%
2kvsA00 1.10.150.260 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › YozE SAM-like 0.50 44.0 3.88e-01 100.0% 91.3%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3536234 3914.1.1.2 alpha bundles › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › TMEM16 lipid scramblase transmembrane domain › Anoctamin,Anoct_dimer 0.69 59.0 3.25e-01 96.3% 6.5%
3972488 4168.1.1.1 alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › HAMP 0.68 40.0 3.59e-01 83.3% 42.7%
4084556 621.1.1.0 alpha bundles › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain › Interferon-induced guanylate-binding protein 1 (GBP1), C-terminal domain 0.63 48.0 3.73e-01 90.7% 37.5%
4540106 3396.1.1.3 extended segments › HIG1 domain family member 1A › HIG1 domain family member 1A › HIG1 domain family member 1A › DUF4481 0.62 54.0 4.76e-01 98.1% 67.5%
4950970 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.61 47.0 2.83e-01 83.3% 14.5%
3923557 3755.3.1.0 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.61 46.0 3.15e-01 83.3% 70.0%
4520394 5063.1.1.1 alpha bundles › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › Photosystem I reaction center subunit X, PsaK › PSI_PSAK 0.60 52.0 4.82e-01 100.0% 85.5%
3554465 101.1.1.8 alpha arrays › HTH › HTH › Three-helical HTH › TEA 0.60 46.0 4.31e-01 87.0% 67.1%
3365092 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 42.0 2.86e-01 81.5% 18.7%
4584911 2484.1.1.37 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.59 52.0 3.99e-01 100.0% 59.2%
3195747 3788.1.1.0 alpha bundles › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) › Viral accessory protein x (Vpx) / viral protein r (Vpr) 0.55 46.0 4.31e-01 100.0% 77.1%
1171151 191.1.1.1 alpha bundles › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › Tetracyclin repressor-like, C-terminal domain › TetR_C_1 0.55 45.0 3.48e-01 100.0% 38.0%
5018039 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.55 43.0 3.53e-01 92.6% 86.1%
3187391 5076.1.1.0 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier 0.55 45.0 3.02e-01 100.0% 23.3%
3964779 7566.1.1.1 a/b three-layered sandwiches › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › HflX family GTPase N-terminal domain › GTP-bdg_N,GTP-bdg_M 0.54 39.0 2.82e-01 83.3% 24.7%
3853055 3324.1.1.1 extended segments › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › Helical arch in Ski2-like helicases › MTR4_beta-barrel 0.52 41.0 3.17e-01 90.7% 93.8%
3928003 192.4.1.0 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.50 37.0 2.97e-01 90.7% 37.5%
D2 high residues 105-173
PDB
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1p5dX04 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.65 50.0 4.60e-01 100.0% 62.4%
3fbuA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 57.0 4.31e-01 100.0% 62.7%
1vkcA01 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.64 55.0 4.41e-01 97.1% 79.9%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.64 52.0 3.97e-01 91.3% 90.4%
4fvaC00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.63 50.0 3.50e-01 91.3% 24.7%
4lgvD02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.63 51.0 3.48e-01 89.9% 60.0%
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 50.0 3.99e-01 92.8% 44.4%
1gpqB00 3.40.1420.10 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Inhibitor of vertebrate lysozyme 0.59 48.0 4.03e-01 94.2% 88.3%
3l1wA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.58 46.0 3.24e-01 92.8% 38.2%
4r0mA02 3.30.300.30 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › ANL, C-terminal domain 0.58 44.0 3.84e-01 84.1% 71.3%
7q5yB01 3.30.460.80 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › NADH:ubiquinone oxidoreductase Nqo5 subunit 0.57 40.0 3.35e-01 73.9% 55.0%
6v04A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 47.0 4.01e-01 100.0% 76.4%
3dpuB03 3.30.310.200 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.56 46.0 4.08e-01 100.0% 62.0%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.56 41.0 3.62e-01 78.3% 61.8%
1x67A01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.55 47.0 3.89e-01 98.6% 53.4%
3f02B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.55 43.0 3.85e-01 87.0% 61.0%
2k4vA00 3.30.160.370 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Domain of unknown function DUF5064 0.55 46.0 3.92e-01 100.0% 80.8%
3a57A00 2.60.270.30 Mainly Beta › Sandwich › Mutm (Fpg) Protein; Chain: A, domain 2 › Vibrio parahaemolyticus thermostable direct hemolysin 0.54 46.0 3.67e-01 100.0% 83.8%
8b4hA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 41.0 3.20e-01 85.5% 90.1%
3h4rA00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.53 47.0 3.31e-01 100.0% 65.8%
1cjxB02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.53 43.0 3.27e-01 100.0% 40.6%
4hjhA04 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.52 43.0 3.96e-01 100.0% 78.2%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 46.0 3.87e-01 98.6% 96.6%
1imuA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.52 35.0 3.10e-01 78.3% 45.8%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.52 43.0 3.41e-01 100.0% 92.7%
1d5aA01 3.30.342.10 Alpha Beta › 2-Layer Sandwich › DNA Polymerase; Chain A, domain 1 › DNA Polymerase, chain B, domain 1 0.52 38.0 3.11e-01 84.1% 41.7%
2cayB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 42.0 3.50e-01 94.2% 87.8%
3fssA01 2.30.29.120 Mainly Beta › Roll › PH-domain like › 0.51 40.0 3.30e-01 88.4% 94.1%
3gniB01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 40.0 3.66e-01 85.5% 92.1%
4dy0B02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.50 37.0 3.15e-01 82.6% 49.2%
ECOD (29)
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 0.65 52.0 3.43e-01 88.4% 63.0%
3608772 2004.1.1.427 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › RHSP, RHS_N 0.61 45.0 2.73e-01 78.3% 22.3%
3788749 6109.1.1.0 a+b two layers › N-terminal domain of chitin biosynthesis protein CHS6 › N-terminal domain of chitin biosynthesis protein CHS6 › N-terminal domain of chitin biosynthesis protein CHS6 0.59 43.0 3.39e-01 78.3% 65.3%
4820757 4272.1.1.1 a+b two layers › Nqo5-like › Nqo5-like › Nqo5-like › Complex1_30kDa 0.59 43.0 3.70e-01 76.8% 82.2%
3194226 12.6.1.3 beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Bac_rhamnosid_C 0.58 37.0 4.09e-01 88.4% 90.0%
4945424 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 46.0 3.81e-01 91.3% 96.9%
4243248 213.1.1.6 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › ODC_AZ 0.56 47.0 3.32e-01 100.0% 67.8%
3925101 5.1.3.99 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FG-GAP_3 0.56 48.0 2.99e-01 97.1% 54.7%
4959998 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 49.0 4.32e-01 100.0% 87.6%
4043415 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.55 40.0 2.50e-01 78.3% 64.6%
3518948 214.1.1.9 a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.55 41.0 3.91e-01 82.6% 94.1%
4015004 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.55 40.0 2.41e-01 79.7% 61.0%
4982249 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.54 44.0 4.14e-01 98.6% 83.2%
4886802 12.1.1.3 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Alpha-amylase_C 0.54 38.0 3.60e-01 88.4% 60.2%
4987228 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.53 45.0 3.50e-01 100.0% 65.1%
3275248 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.53 42.0 3.50e-01 87.0% 58.3%
3383121 5.1.3.118 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.53 46.0 3.00e-01 98.6% 39.7%
3938330 206.1.1.20 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.52 44.0 2.99e-01 100.0% 42.0%
4935472 330.4.1.0 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain 0.52 35.0 3.56e-01 73.9% 68.6%
3931594 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 40.0 3.64e-01 82.6% 62.2%
3882130 221.4.1.1 a+b two layers › beta-Grasp › Nudix › Nudix › NUDIX 0.52 44.0 3.14e-01 98.6% 71.0%
3350473 331.1.1.0 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.52 42.0 4.24e-01 98.6% 95.7%
None 0.52 43.0 3.66e-01 97.1% 59.2%
3951937 330.8.1.1 a+b two layers › dsRBD-like › Rv2632c-like › Rv2632c-like › Rv2632c-like 0.51 40.0 3.65e-01 82.6% 68.5%
3906073 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 39.0 3.48e-01 85.5% 95.2%
3737176 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.51 40.0 3.83e-01 100.0% 72.9%
3960733 330.8.1.1 a+b two layers › dsRBD-like › Rv2632c-like › Rv2632c-like › Rv2632c-like 0.51 38.0 3.58e-01 82.6% 64.7%
5052285 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 44.0 3.87e-01 100.0% 76.2%
3415735 216.1.1.20 a+b two layers › UBC-like › UBC-like › UBC-like › UBC_like 0.50 41.0 3.83e-01 98.6% 71.6%