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NC_041878.1__YP_009594592.1__FDG95_gp052__00052

Bact-Vir

NC_041878.1__YP_009594592.1__FDG95_gp052__00052

Identity

Accession:
NC_041878 ↗
Kingdom:
phage

Quality

85.6 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 3-100
PDB
Domain cluster: representative
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ebwA01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 43.0 3.83e-01 77.6% 90.8%
4exrA01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.58 32.0 3.53e-01 72.4% 65.4%
1srqA01 3.30.1120.160 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.58 42.0 3.78e-01 76.5% 60.1%
3gocA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.58 47.0 3.65e-01 90.8% 77.2%
1pbyB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 38.0 2.63e-01 71.4% 71.2%
2xzhA00 2.130.10.110 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Clathrin heavy-chain terminal domain 0.54 46.0 3.15e-01 92.9% 48.6%
5zc1D00 3.10.450.10 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 34.0 3.43e-01 75.5% 62.2%
3b7kB01 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.53 39.0 3.53e-01 84.7% 55.0%
1tu1A00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.53 35.0 3.10e-01 81.6% 45.1%
2lnjA00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.53 35.0 2.96e-01 83.7% 38.8%
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 38.0 2.96e-01 86.7% 36.1%
2r5vB02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 38.0 3.02e-01 86.7% 37.9%
5fgoA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 31.0 3.79e-01 75.5% 95.2%
1b7eA01 3.90.350.10 Alpha Beta › Alpha-Beta Complex › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 › Transposase Inhibitor Protein From Tn5; Chain A, domain 1 0.51 45.0 3.39e-01 99.0% 95.1%
4xmeA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 37.0 3.14e-01 79.6% 78.8%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5072279 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.65 43.0 2.83e-01 100.0% 16.7%
4928898 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.62 33.0 3.73e-01 76.5% 66.7%
4948163 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.62 48.0 3.76e-01 83.7% 80.9%
4944954 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.61 46.0 3.67e-01 82.7% 83.3%
3536447 4026.1.1.1 a+b three layers › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › a+b domain in Rap/Ran-GAP (Pfam 02145) › Rap-GAP_dimer 0.60 45.0 4.02e-01 81.6% 61.4%
5019886 243.3.1.3 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY 0.58 32.0 3.58e-01 73.5% 69.3%
1887056 243.1.1.0 a+b two layers › Cystatin-like › NTF2-like › NTF2-like 0.56 36.0 3.38e-01 80.6% 52.5%
4998774 2004.1.1.198 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_23 0.54 41.0 2.63e-01 100.0% 16.5%
3580035 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 46.0 3.15e-01 92.9% 49.7%
3263735 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 46.0 3.14e-01 92.9% 49.1%
3532417 2007.2.3.21 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase, PTP-SAK 0.54 39.0 2.84e-01 77.6% 70.5%
3855356 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.54 39.0 2.75e-01 76.5% 66.8%
3709162 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 43.0 2.99e-01 88.8% 37.6%
3512196 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.53 36.0 2.53e-01 71.4% 53.8%
3507402 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.53 38.0 2.69e-01 75.5% 67.9%
3241305 295.1.1.3 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.52 37.0 3.36e-01 99.0% 52.9%
3404842 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.52 37.0 2.62e-01 74.5% 53.0%
3730237 2008.1.1.99 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_12 0.51 37.0 2.75e-01 75.5% 35.0%
3606505 5.1.3.28 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_3 0.51 44.0 2.95e-01 94.9% 45.7%
3228051 295.1.1.3 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.51 32.0 3.81e-01 80.6% 96.9%
3882821 2007.2.3.21 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase, PTP-SAK 0.51 36.0 2.54e-01 73.5% 54.4%
3533174 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.51 41.0 2.93e-01 87.8% 83.3%
None 0.51 40.0 2.91e-01 86.7% 85.0%
D2 high residues 110-167
PDB
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1m9sA03 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.72 60.0 5.57e-01 93.1% 89.3%
3m9qA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.70 58.0 5.48e-01 93.1% 84.7%
3lx7A01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 48.0 5.20e-01 96.6% 95.7%
4ld6A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.66 59.0 4.68e-01 100.0% 73.5%
2bh8A02 6.20.370.20 Special › Other non-globular › Rhinovirus 14, subunit 4 › 0.65 31.0 3.92e-01 74.1% 78.1%
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.65 54.0 5.31e-01 94.8% 87.1%
4krtB03 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.64 52.0 5.00e-01 93.1% 100.0%
3kxtA00 2.30.30.610 Mainly Beta › Roll › SH3 type barrels. › Chromatin protein Cren7 0.63 49.0 4.99e-01 86.2% 91.1%
2re3A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.63 47.0 4.50e-01 89.7% 68.6%
4iupB01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.62 50.0 4.99e-01 93.1% 90.3%
2v43A01 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.62 49.0 3.47e-01 87.9% 77.6%
4p25D01 2.40.510.10 Mainly Beta › Beta Barrel › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Positive stranded ssRNA viruses 0.61 48.0 3.30e-01 84.5% 81.4%
2wbfX00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.60 50.0 3.38e-01 100.0% 34.0%
1pjxA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.60 49.0 3.02e-01 87.9% 26.1%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.60 47.0 4.71e-01 94.8% 88.1%
1ei5A03 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.59 43.0 3.51e-01 77.6% 81.4%
2avwD01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.56 48.0 3.71e-01 100.0% 57.4%
7mhwA01 2.40.128.10 Mainly Beta › Beta Barrel › Lipocalin › 0.56 41.0 3.54e-01 75.9% 83.1%
1jeyA02 2.40.290.10 Mainly Beta › Beta Barrel › Ku70; Chain: A; Domain 2 › 0.56 43.0 3.44e-01 86.2% 69.8%
2lt1A00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.56 48.0 4.44e-01 96.6% 76.0%
1eigA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 40.0 3.86e-01 82.8% 76.7%
2ymaA00 3.10.310.60 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.54 43.0 3.22e-01 84.5% 60.7%
1eotA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 39.0 3.74e-01 82.8% 77.0%
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.54 40.0 3.94e-01 86.2% 82.1%
3vseA01 2.30.130.10 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › PUA domain 0.53 36.0 3.44e-01 70.7% 71.0%
2ft0A00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.53 39.0 2.66e-01 81.0% 58.1%
1birA00 3.10.450.30 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Microbial ribonucleases 0.52 40.0 3.38e-01 86.2% 58.7%
3he1A00 2.30.110.20 Mainly Beta › Roll › Pnp Oxidase; Chain A › Hcp1-like 0.52 44.0 3.38e-01 100.0% 57.8%
3uizB00 2.60.40.1570 Mainly Beta › Sandwich › Immunoglobulin-like › Dr adhesin 0.52 35.0 2.83e-01 74.1% 63.4%
1eqnB01 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.51 38.0 3.03e-01 81.0% 57.1%
2coaA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 41.0 3.40e-01 96.6% 77.1%
7obmA01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.51 41.0 2.53e-01 87.9% 19.0%
3d1cA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 40.0 3.36e-01 94.8% 97.4%
1g6zA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 37.0 3.51e-01 96.6% 65.7%
1tltA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.50 39.0 2.82e-01 87.9% 96.2%
1f0cA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.50 36.0 3.00e-01 81.0% 95.8%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3423528 708.1.1.1 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › NAM 0.71 50.0 3.60e-01 74.1% 72.1%
3612090 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 59.0 5.87e-01 96.6% 90.0%
3572423 4.1.1.12 beta barrels › SH3 › SH3 › SH3 › PWWP 0.70 61.0 4.85e-01 100.0% 71.7%
3417505 708.1.1.1 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain › NAM 0.68 48.0 3.50e-01 74.1% 86.9%
3204891 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.67 57.0 5.26e-01 94.8% 98.7%
3934278 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.67 57.0 4.56e-01 94.8% 51.3%
4537309 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 0.67 43.0 3.69e-01 84.5% 40.0%
3742938 4.1.1.102 beta barrels › SH3 › SH3 › SH3 › Tudor_3 0.66 54.0 5.21e-01 91.4% 80.0%
5042081 2004.1.1.175 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ParA 0.65 44.0 2.98e-01 72.4% 31.9%
3842361 1.1.5.76 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › CABIT 0.64 52.0 4.64e-01 100.0% 77.9%
3459413 5.1.4.39 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › ANAPC4_WD40 0.64 51.0 3.01e-01 86.2% 16.0%
4000622 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.63 52.0 4.12e-01 91.4% 44.2%
3616769 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.62 53.0 4.52e-01 94.8% 57.9%
3725926 2.1.1.94 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › TLP1_add_C 0.61 42.0 3.82e-01 74.1% 92.9%
3621211 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.61 40.0 4.60e-01 75.9% 97.5%
4656484 1.1.1.5 beta barrels › cradle loop barrel › RIFT-related › acid protease › Zn_protease 0.61 46.0 3.46e-01 82.8% 41.3%
5029710 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.60 47.0 3.02e-01 84.5% 21.1%
3794500 4.1.1.287 beta barrels › SH3 › SH3 › SH3 › DUF5641 0.59 52.0 3.69e-01 100.0% 31.9%
3839369 4.1.1.32 beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.59 47.0 4.32e-01 94.8% 66.3%
5035835 4.6.1.0 beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain 0.58 47.0 4.72e-01 93.1% 88.3%
4480625 304.107.1.0 a+b two layers › Alpha-beta plaits › Aminomethyltransferase folate-binding domain › Aminomethyltransferase folate-binding domain 0.58 49.0 3.65e-01 94.8% 97.3%
3644046 4120.1.1.0 few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP 0.57 30.0 2.91e-01 100.0% 41.5%
3652288 145.1.1.50 alpha arrays › F-box domain › F-box domain › F-box domain › Kelch_1 0.57 43.0 2.79e-01 86.2% 21.0%
4339993 4.1.1.32 beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.56 46.0 4.14e-01 98.3% 63.3%
3422909 2003.1.2.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.56 43.0 2.98e-01 91.4% 22.2%
3529648 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.56 46.0 3.63e-01 98.3% 52.1%
4547406 4.1.1.32 beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.56 47.0 4.30e-01 98.3% 71.2%
659 1170.1.1.1 beta barrels › IL8-related › IL8-related › IL8 › IL8 0.56 40.0 3.86e-01 82.8% 76.7%
4205352 375.14.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.55 36.0 3.86e-01 81.0% 78.0%
3388362 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 47.0 2.67e-01 100.0% 64.7%
3957864 881.1.1.17 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › DUF3710 0.54 47.0 3.31e-01 94.8% 75.3%
3888605 1170.1.1.1 beta barrels › IL8-related › IL8-related › IL8 › IL8 0.54 40.0 3.84e-01 86.2% 73.0%
3212583 76.1.1.0 beta duplicates or obligate multimers › beta-Prism I › beta-Prism I › beta-Prism I 0.54 42.0 3.57e-01 87.9% 97.0%
4231809 2004.1.1.87 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N 0.54 47.0 2.77e-01 100.0% 16.8%
3716765 5.1.5.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.53 42.0 2.44e-01 91.4% 70.2%
3716884 5.1.4.16 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.53 40.0 2.43e-01 84.5% 16.2%
1512998 3953.1.1.1 a+b two layers › Csd3 N-terminal domain › Csd3 N-terminal domain › Csd3 N-terminal domain › Csd3_N 0.53 39.0 3.52e-01 81.0% 74.1%
3587406 331.1.1.2 a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › Rep_trans 0.52 44.0 3.16e-01 94.8% 77.7%
3174528 244.1.1.11 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › SE 0.52 39.0 2.41e-01 82.8% 48.1%
4316044 101.1.2.388 alpha arrays › HTH › HTH › winged helix domain › YjhX_toxin 0.52 46.0 3.99e-01 100.0% 82.2%
3859965 4.1.1.107 beta barrels › SH3 › SH3 › SH3 › XRN1_D1 0.52 37.0 2.69e-01 79.3% 52.6%