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NC_009016.1__YP_001039858.1__VPVV882_gp47__00047

Bact-Vir

NC_009016.1__YP_001039858.1__VPVV882_gp47__00047

Identity

Accession:
NC_009016 ↗
Kingdom:
phage

Quality

91.1 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 6-73
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4oxwA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.71 52.0 4.49e-01 80.9% 50.0%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.68 50.0 4.36e-01 86.8% 51.0%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.68 52.0 4.26e-01 82.4% 44.4%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.68 50.0 4.19e-01 77.9% 45.7%
2ar5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.66 48.0 4.02e-01 77.9% 50.4%
2zkmX01 2.30.29.240 Mainly Beta › Roll › PH-domain like › 0.63 44.0 3.08e-01 72.1% 72.3%
1dl5A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 43.0 3.08e-01 72.1% 66.2%
2h1eA02 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.62 40.0 4.37e-01 72.1% 81.8%
5fgoA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.62 48.0 4.99e-01 95.6% 93.5%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 49.0 3.94e-01 86.8% 72.4%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.61 47.0 4.73e-01 85.3% 81.4%
1f89A00 3.60.110.10 Alpha Beta › 4-Layer Sandwich › Nitrilase/N-carbamoyl-D-aminoacid amidohydrolase › Carbon-nitrogen hydrolase 0.61 52.0 3.53e-01 98.5% 94.1%
3p0cA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 41.0 3.64e-01 76.5% 45.0%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.59 52.0 3.94e-01 100.0% 47.6%
4c89C00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.59 49.0 3.18e-01 95.6% 73.7%
4rgyA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.59 43.0 3.04e-01 80.9% 91.1%
2epbA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 37.0 3.80e-01 70.6% 66.2%
3k44B00 3.30.2450.30 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.58 49.0 3.89e-01 95.6% 57.1%
1qlmA02 3.30.1030.10 Alpha Beta › 2-Layer Sandwich › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 › Methenyltetrahydromethanopterin Cyclohydrolase; Chain A, domain 2 0.57 49.0 3.59e-01 98.5% 78.8%
1jmxB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 45.0 2.92e-01 91.2% 35.7%
1tuhA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.56 38.0 3.17e-01 73.5% 38.9%
2lkoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 36.0 2.93e-01 70.6% 32.6%
2ia7A00 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.55 37.0 3.28e-01 72.1% 64.9%
2pgeA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.55 37.0 3.14e-01 72.1% 85.0%
3dcxA00 2.30.29.50 Mainly Beta › Roll › PH-domain like › Bacterial Pleckstrin homology domain 0.54 37.0 3.12e-01 70.6% 55.6%
2lpuA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.54 40.0 3.24e-01 82.4% 83.1%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 42.0 3.33e-01 86.8% 57.0%
3ub8A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.54 44.0 3.44e-01 92.6% 96.2%
2ei0A02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.54 36.0 2.94e-01 85.3% 32.2%
3anzC00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.53 40.0 2.62e-01 80.9% 76.2%
6krwA01 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.52 45.0 3.00e-01 98.5% 43.4%
1a6aB01 3.10.320.10 Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 0.52 38.0 3.52e-01 83.8% 60.7%
2crfA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 39.0 3.33e-01 85.3% 58.4%
4q8gA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.52 37.0 2.40e-01 76.5% 26.7%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.52 37.0 3.00e-01 80.9% 81.5%
2konA00 3.30.160.350 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.73e-01 83.8% 82.9%
1fneA01 3.10.320.10 Alpha Beta › Roll › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 › Class II Histocompatibility Antigen, M Beta Chain; Chain B, domain 1 0.51 39.0 3.78e-01 94.1% 70.9%
3oc4B03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.51 36.0 3.10e-01 77.9% 49.6%
2dchX02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.51 36.0 3.21e-01 79.4% 66.7%
2o8bB02 3.30.420.110 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › MutS, connector domain 0.50 37.0 2.82e-01 82.4% 93.5%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.50 38.0 3.79e-01 85.3% 95.8%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4024732 295.1.1.40 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › Microp_apicomplexa_10 0.72 57.0 5.44e-01 94.1% 73.8%
3774525 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.71 56.0 4.07e-01 85.3% 74.4%
3544618 4292.2.1.0 a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.70 53.0 4.99e-01 85.3% 65.9%
3911618 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.70 55.0 4.06e-01 85.3% 34.9%
3738467 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.69 56.0 4.39e-01 86.8% 95.7%
3485727 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.69 52.0 4.69e-01 82.4% 57.9%
3250605 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.69 51.0 4.20e-01 79.4% 44.8%
None 0.68 54.0 4.02e-01 85.3% 77.1%
3554073 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.68 51.0 4.07e-01 77.9% 40.8%
3738197 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.68 52.0 3.91e-01 82.4% 37.0%
3970718 3675.1.1.0 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain 0.67 54.0 4.26e-01 91.2% 43.3%
4429847 3675.1.1.1 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.66 54.0 4.11e-01 91.2% 39.4%
3747453 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.66 51.0 4.06e-01 83.8% 55.7%
3927894 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.66 49.0 3.96e-01 83.8% 40.7%
3562700 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.65 49.0 3.94e-01 82.4% 40.7%
3478366 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.65 47.0 4.13e-01 77.9% 51.4%
3232550 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 50.0 4.69e-01 88.2% 83.5%
3539740 378.1.1.19 few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases › HNH_3 0.62 48.0 3.98e-01 85.3% 76.0%
3733718 4292.2.1.0 a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.61 44.0 4.18e-01 85.3% 63.5%
3985617 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.60 45.0 4.50e-01 91.2% 80.0%
2321284 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.60 48.0 4.11e-01 89.7% 86.8%
4931303 802.1.1.1 a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 › BFN_dom 0.60 40.0 3.73e-01 70.6% 55.3%
3589823 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.60 48.0 4.91e-01 100.0% 96.9%
3837975 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.59 45.0 3.38e-01 80.9% 40.6%
3978756 3197.1.1.1 a+b two layers › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 › PipB2_N 0.59 49.0 4.13e-01 95.6% 59.2%
3823559 5.1.3.67 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.57 43.0 2.80e-01 79.4% 61.2%
3265211 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 41.0 3.35e-01 75.0% 52.0%
4116159 330.1.1.5 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.57 38.0 3.53e-01 70.6% 61.1%
4995812 283.2.1.1 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › gpW/gp25-like › gpW/gp25-like › GPW_gp25 0.57 40.0 3.53e-01 82.4% 51.0%
4938373 2004.1.1.146 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase 0.56 41.0 2.87e-01 79.4% 82.1%
3807026 5.1.3.118 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.56 41.0 2.98e-01 80.9% 39.1%
3487913 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.56 34.0 3.25e-01 72.1% 49.4%
4986581 283.1.1.0 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase 0.56 39.0 3.62e-01 76.5% 56.7%
3930311 220.1.1.176 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7778 0.56 39.0 3.32e-01 75.0% 45.8%
4862964 3675.1.1.1 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.56 43.0 3.34e-01 92.6% 33.7%
4160593 3675.1.1.1 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.56 47.0 3.67e-01 100.0% 47.3%
3440964 5.1.3.118 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.55 45.0 3.08e-01 98.5% 57.8%
3729835 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 45.0 2.85e-01 97.1% 41.2%
1826875 330.13.1.1 a+b two layers › dsRBD-like › dGTP triphosphohydrolase inhibitor › dGTP triphosphohydrolase inhibitor › T7-like_gp12 0.55 40.0 3.84e-01 80.9% 71.8%
3427602 5.1.3.67 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.55 46.0 3.07e-01 97.1% 56.2%
4973193 802.1.1.1 a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 › BFN_dom 0.55 36.0 3.46e-01 70.6% 55.3%
3651210 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 35.0 3.70e-01 80.9% 75.0%
3697470 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 45.0 2.81e-01 94.1% 38.8%
3456692 386.1.1.4 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.55 35.0 3.73e-01 80.9% 76.3%
4348096 3675.1.1.1 a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.55 46.0 3.62e-01 100.0% 48.5%
3710433 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.54 42.0 3.75e-01 92.6% 89.1%
3492440 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.54 44.0 3.57e-01 88.2% 76.8%
4953226 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.54 37.0 3.76e-01 76.5% 73.8%
3782256 2004.1.1.429 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N, AAA_15 0.53 45.0 2.93e-01 100.0% 35.3%
4405445 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.53 37.0 3.72e-01 75.0% 87.1%
4983377 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.53 40.0 3.41e-01 79.4% 77.1%
5050199 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 45.0 3.58e-01 100.0% 84.8%
3493824 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 43.0 2.79e-01 92.6% 49.1%
4027128 896.1.1.2 a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP14 0.52 37.0 3.57e-01 75.0% 74.4%
3938274 2003.1.3.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain 0.52 37.0 2.69e-01 75.0% 72.7%
4978786 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 45.0 2.67e-01 100.0% 21.3%
3607857 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 37.0 3.39e-01 79.4% 64.0%
3408648 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 40.0 3.55e-01 85.3% 77.0%
3819309 330.1.1.5 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.51 38.0 3.64e-01 85.3% 85.9%