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NC_055025.1__YP_010082026.1__KMD14_gp59__00059

Bact-Vir

NC_055025.1__YP_010082026.1__KMD14_gp59__00059

Identity

Accession:
NC_055025 ↗
Kingdom:
phage

Quality

92.5 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 4-70
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5ksdA04 3.40.1110.10 Alpha Beta › 3-Layer(aba) Sandwich › Calcium-transporting ATPase, cytoplasmic domain N › Calcium-transporting ATPase, cytoplasmic domain N 0.74 66.0 5.10e-01 100.0% 80.4%
1aqbA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.72 57.0 4.12e-01 85.1% 42.3%
3ozqA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.70 62.0 4.58e-01 97.0% 60.6%
1jrrA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.70 60.0 4.87e-01 94.0% 80.3%
1jmoA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.69 61.0 4.67e-01 97.0% 79.3%
4nzjA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.69 50.0 4.56e-01 76.1% 97.7%
1imvA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.69 61.0 4.48e-01 97.0% 71.6%
1qmnA01 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.69 61.0 4.73e-01 97.0% 80.0%
3f1sA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.68 60.0 4.61e-01 97.0% 78.0%
2r9yA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.68 60.0 4.61e-01 97.0% 72.6%
3a5vA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.68 49.0 4.31e-01 76.1% 98.0%
1ktbA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.68 47.0 4.30e-01 73.1% 98.9%
7snsB01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.67 60.0 4.52e-01 100.0% 74.1%
1yqfB00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.67 57.0 4.18e-01 94.0% 36.7%
2v95A02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.67 59.0 4.70e-01 97.0% 76.7%
5lvxC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.64 47.0 4.02e-01 77.6% 63.0%
1uasA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.64 47.0 4.32e-01 79.1% 100.0%
1zylA01 3.30.200.70 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › 0.64 48.0 4.80e-01 82.1% 100.0%
2h36X00 3.30.160.300 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.63 49.0 4.17e-01 83.6% 53.7%
3h3hB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 50.0 4.17e-01 88.1% 97.5%
2gc9B00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.63 55.0 4.19e-01 100.0% 77.6%
6j8yC00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.63 45.0 3.08e-01 77.6% 48.2%
4puxA00 2.40.160.20 Mainly Beta › Beta Barrel › Porin › 0.63 53.0 4.04e-01 94.0% 62.4%
2xepB01 3.10.450.280 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 51.0 4.26e-01 88.1% 76.3%
8bddA02 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.62 46.0 2.93e-01 80.6% 55.6%
6hpvA01 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.62 49.0 4.63e-01 88.1% 100.0%
4ok4A02 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.62 54.0 3.42e-01 100.0% 74.2%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.61 52.0 4.14e-01 100.0% 57.5%
2bhoA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.61 48.0 4.06e-01 83.6% 70.9%
2gu3A01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.61 49.0 5.04e-01 91.0% 90.8%
4gyiA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 45.0 4.01e-01 79.1% 100.0%
8aimG01 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.61 52.0 4.93e-01 95.5% 100.0%
1jyaB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.61 48.0 3.92e-01 85.1% 75.2%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 46.0 4.51e-01 83.6% 80.0%
7q04F01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.60 43.0 3.69e-01 76.1% 89.9%
3hxlA02 2.60.40.4290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 43.0 3.94e-01 89.6% 56.7%
2gu3A02 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 46.0 4.74e-01 83.6% 92.1%
3gneB00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.60 47.0 3.30e-01 89.6% 62.4%
2imjD01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 47.0 3.78e-01 89.6% 81.0%
1s0wC01 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.56 48.0 4.36e-01 94.0% 97.8%
3va7A05 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.56 47.0 4.08e-01 91.0% 69.0%
2m7oA00 3.10.450.400 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Uncharacterised protein PF15513, DUF4651 0.55 40.0 3.99e-01 92.5% 77.1%
8ainB01 3.10.450.250 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › S. aureus uracil DNA glycosylase inhibitor 0.54 41.0 3.59e-01 83.6% 80.0%
4mjgA00 3.30.2030.30 Alpha Beta › 2-Layer Sandwich › TBP-like › 0.53 46.0 3.46e-01 100.0% 56.5%
5ighA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 47.0 4.30e-01 100.0% 95.5%
5ih0A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 45.0 4.14e-01 100.0% 91.4%
3wa5B00 2.60.120.1690 Mainly Beta › Sandwich › Jelly Rolls › 0.53 45.0 3.76e-01 100.0% 92.7%
3u2aA00 3.30.450.310 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.52 42.0 3.61e-01 91.0% 80.4%
2zxkA00 3.40.1500.20 Alpha Beta › 3-Layer(aba) Sandwich › oxygen-dependent coproporphyrinogen oxidase › 0.52 45.0 3.07e-01 100.0% 73.3%
7o0eA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 43.0 4.09e-01 100.0% 79.5%
1pzdA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.51 45.0 3.79e-01 100.0% 67.0%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
865437 241.1.1.2 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › Autophagy_act_C 0.71 63.0 4.85e-01 100.0% 82.1%
3238369 12.1.1.88 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › DUF5386 0.71 52.0 5.70e-01 91.0% 98.1%
4967080 267.1.1.0 a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.70 62.0 4.41e-01 100.0% 71.7%
3727127 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.70 57.0 3.48e-01 89.6% 65.4%
3208232 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.69 56.0 3.37e-01 89.6% 60.4%
3980136 243.3.1.21 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › YsaB 0.69 53.0 5.14e-01 82.1% 84.0%
3969722 6043.1.1.0 a+b two layers › yfeY-like › yfeY-like › yfeY-like 0.68 47.0 4.66e-01 80.6% 68.6%
3813621 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.68 56.0 4.95e-01 89.6% 76.8%
3740970 5.1.4.249 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_pof12 0.68 52.0 3.29e-01 83.6% 37.7%
3637832 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.68 55.0 3.34e-01 89.6% 60.8%
3225518 207.1.1.81 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › FTH 0.67 43.0 2.95e-01 82.1% 18.0%
4147907 9.1.1.14 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.67 58.0 4.65e-01 100.0% 92.9%
3741855 12.1.1.35 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Melibiase_C 0.67 48.0 4.29e-01 76.1% 100.0%
3205376 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.67 55.0 3.36e-01 89.6% 66.4%
3268021 12.1.1.35 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Melibiase_C 0.65 48.0 4.31e-01 79.1% 93.7%
4964362 6030.1.1.1 a+b two layers › Middle domain of ribosomal protein S2-related protein › Middle domain of ribosomal protein S2-related protein › Middle domain of ribosomal protein S2-related protein › DR2241 0.65 49.0 4.06e-01 82.1% 70.8%
3187947 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.64 53.0 3.25e-01 91.0% 63.8%
3709245 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.64 44.0 4.08e-01 97.0% 56.5%
3989353 9.9.1.1 beta barrels › Lipocalins/Streptavidin › Hypothetical protein YwiB › Hypothetical protein YwiB › DUF1934 0.63 56.0 4.48e-01 95.5% 82.4%
5022918 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.63 51.0 4.08e-01 88.1% 48.9%
3482926 897.1.1.1 a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 › MAM33 0.63 56.0 4.17e-01 100.0% 47.4%
5012828 5.1.4.40 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PQQ_2 0.63 49.0 3.07e-01 85.1% 23.2%
5053933 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.63 52.0 5.28e-01 88.1% 95.4%
3957605 243.1.1.35 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › ORF_12_N 0.63 48.0 4.29e-01 82.1% 93.7%
1142022 12.2.1.5 beta sandwiches › Glycosyl hydrolase domain-like › Hyaluronate lyase-like, C-terminal domain › Hyaluronate lyase-like, C-terminal domain › Alg17C_C 0.63 44.0 4.55e-01 73.1% 98.4%
3061224 12.2.1.5 beta sandwiches › Glycosyl hydrolase domain-like › Hyaluronate lyase-like, C-terminal domain › Hyaluronate lyase-like, C-terminal domain › Alg17C_C 0.63 43.0 4.45e-01 71.6% 98.4%
3625014 216.1.1.16 a+b two layers › UBC-like › UBC-like › UBC-like › Med27 0.62 48.0 3.52e-01 82.1% 36.5%
3289377 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 54.0 4.00e-01 98.5% 72.2%
3220909 11.10.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like 0.62 47.0 3.88e-01 82.1% 87.5%
3973549 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.61 49.0 3.26e-01 89.6% 50.2%
3785654 5.1.4.37 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nup160 0.61 49.0 2.93e-01 89.6% 25.2%
3285940 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.61 54.0 3.55e-01 100.0% 80.7%
4929797 252.2.1.0 a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.61 45.0 4.77e-01 83.6% 89.8%
4960303 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.61 51.0 4.50e-01 91.0% 74.7%
4280626 558.1.1.26 alpha duplicates or obligate multimers › Lis-homology dimerization domain › Lis-homology dimerization domain › Lis-homology dimerization domain › WD40 0.60 53.0 3.24e-01 100.0% 66.3%
3578505 708.1.1.0 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.60 43.0 3.44e-01 76.1% 39.3%
3940934 4023.1.1.0 a+b two layers › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core 0.60 49.0 4.43e-01 92.5% 68.4%
4871016 274.1.1.2 a+b two layers › Pili subunits › Pili subunits › Pili subunits › Pilin,N_methyl 0.59 47.0 3.72e-01 88.1% 52.4%
3415714 79.1.1.23 beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Chitin_bind_4 0.59 48.0 4.62e-01 88.1% 82.7%
3286756 243.1.1.18 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_2 0.58 45.0 3.78e-01 83.6% 94.7%
4028900 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.58 43.0 3.20e-01 80.6% 32.6%
3830339 11.10.1.5 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.58 49.0 3.83e-01 97.0% 70.7%
3716632 881.1.1.0 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.57 50.0 3.90e-01 98.5% 55.2%
5010092 881.1.1.0 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.57 50.0 4.21e-01 100.0% 99.1%
3610402 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.57 46.0 3.23e-01 89.6% 43.2%
5023556 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.57 48.0 3.28e-01 98.5% 67.4%
3196111 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 42.0 2.80e-01 86.6% 42.3%
4636538 3264.1.1.0 0.56 46.0 3.59e-01 97.0% 40.0%
3800964 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.56 47.0 3.04e-01 98.5% 50.1%
3505929 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.55 46.0 3.53e-01 98.5% 96.0%
4145162 5.1.11.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed 0.54 45.0 2.96e-01 100.0% 29.5%
3792083 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 43.0 2.83e-01 94.0% 51.5%
3398140 4.1.1.326 beta barrels › SH3 › SH3 › SH3 › Chitin_bind_4 0.53 42.0 4.10e-01 89.6% 96.0%
3412007 292.2.1.13 a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › Chitin_bind_4 0.53 44.0 4.35e-01 92.5% 88.6%
3408388 4.1.1.326 beta barrels › SH3 › SH3 › SH3 › Chitin_bind_4 0.53 41.0 3.96e-01 88.1% 85.0%
3673870 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.52 43.0 2.81e-01 95.5% 46.4%
3235867 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 45.0 3.70e-01 100.0% 51.6%
3668583 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 0.51 40.0 2.61e-01 91.0% 43.8%
3440147 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 41.0 2.71e-01 95.5% 50.7%