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NC_028962.1__YP_009214566.1__AVU40_gp111__00111

Bact-Vir

NC_028962.1__YP_009214566.1__AVU40_gp111__00111

Identity

Accession:
NC_028962 ↗
Kingdom:
phage

Quality

68.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Sepunavirus› Staphylococcus_phage_vB_SepM__phiIPLA-C1C

TaxID: 1572704

Cluster

Singleton — not in a non-trivial cluster

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 8-54
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6e20A00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.78 66.0 4.80e-01 95.7% 75.0%
1hlcA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.77 65.0 4.76e-01 95.7% 73.6%
3zxfA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.76 66.0 4.70e-01 97.9% 74.8%
6g6qA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.75 51.0 3.58e-01 89.4% 23.6%
2eo6A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.71 59.0 4.62e-01 97.9% 77.8%
3ligA02 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.71 59.0 4.05e-01 95.7% 66.9%
3u50C01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.70 56.0 4.03e-01 87.2% 86.6%
3i1aA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.69 55.0 4.30e-01 89.4% 77.7%
5h4eA02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.69 57.0 4.25e-01 97.9% 37.0%
5nslA02 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.69 59.0 3.94e-01 100.0% 55.1%
2vqrA01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.69 59.0 3.41e-01 100.0% 26.1%
1xv2C01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.68 54.0 4.09e-01 100.0% 36.9%
2mnjB00 2.60.40.4160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.68 48.0 3.87e-01 74.5% 89.8%
1vpkA01 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.68 53.0 3.98e-01 87.2% 90.0%
3gd0A02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.67 56.0 4.34e-01 97.9% 42.0%
4bt2A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.67 53.0 4.02e-01 100.0% 36.0%
4py5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.67 45.0 4.00e-01 89.4% 45.8%
3u1wA02 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.67 53.0 4.81e-01 89.4% 92.4%
3kyaA02 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.66 57.0 3.37e-01 97.9% 84.2%
2kuqA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 50.0 3.52e-01 87.2% 26.1%
3n6rA03 3.30.700.30 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › 0.65 57.0 4.14e-01 100.0% 42.9%
2lexA00 2.20.25.80 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › WRKY domain 0.65 51.0 4.67e-01 89.4% 74.6%
3jv1A00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.64 52.0 3.53e-01 91.5% 30.2%
7pthC01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.64 55.0 3.17e-01 100.0% 20.8%
3o0hB02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.64 49.0 3.64e-01 83.0% 89.7%
2d0bA01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.64 44.0 3.64e-01 89.4% 39.3%
5b0hA00 2.70.70.10 Mainly Beta › Distorted Sandwich › Glucose Permease (Domain IIA) › Glucose Permease (Domain IIA) 0.64 50.0 3.69e-01 89.4% 54.1%
2opjA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 49.0 4.17e-01 91.5% 65.1%
2k50A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.63 49.0 3.91e-01 89.4% 67.3%
6n8pA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.62 54.0 3.18e-01 100.0% 89.7%
3htxA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 48.0 4.12e-01 85.1% 78.9%
2wdtC02 3.30.1490.420 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Ubiquitin carboxyl-terminal hydrolase, domain 2 0.61 53.0 4.17e-01 100.0% 53.5%
2rlpA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 48.0 4.36e-01 93.6% 83.6%
1akoA00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.60 45.0 2.85e-01 85.1% 61.9%
3fkaB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.60 48.0 3.56e-01 89.4% 43.3%
2imqX00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.60 49.0 3.05e-01 93.6% 54.6%
7xoiD01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 51.0 3.97e-01 100.0% 81.3%
3pvlA04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 46.0 3.70e-01 89.4% 42.4%
1y13A00 3.30.479.10 Alpha Beta › 2-Layer Sandwich › Tetrahydropterin Synthase; Chain A › 6-pyruvoyl tetrahydropterin synthase/QueD 0.58 43.0 3.10e-01 89.4% 95.7%
2k6pA00 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.58 46.0 3.84e-01 89.4% 70.2%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 45.0 3.54e-01 91.5% 45.9%
3nctA00 3.40.50.11880 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Plasmid SOS inhibition protein 0.56 41.0 3.15e-01 89.4% 37.2%
1j0wB00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 41.0 3.38e-01 93.6% 46.6%
1gv4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.52 46.0 3.17e-01 100.0% 68.7%
2digA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 44.0 3.93e-01 97.9% 67.6%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3253996 5.1.5.73 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › PEP5_VPS11_N 0.78 64.0 3.73e-01 89.4% 12.1%
3515415 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.75 59.0 3.18e-01 89.4% 4.7%
3509084 5.1.10.10 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed › Vps16_N 0.74 50.0 4.36e-01 89.4% 45.7%
3406792 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 60.0 5.27e-01 89.4% 77.1%
4302938 292.2.1.0 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.74 52.0 4.26e-01 93.6% 41.2%
3611022 73.1.1.0 ↗ beta sandwiches › SMAD/FHA domain › SMAD/FHA domain › SMAD/FHA domain 0.73 63.0 5.21e-01 100.0% 54.1%
3491452 5.1.4.47 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PHTB1_N 0.73 58.0 3.40e-01 89.4% 24.5%
3524259 633.23.1.1 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › PMP22_Claudin 0.72 52.0 3.42e-01 89.4% 19.5%
3393744 5.1.5.88 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Nucleoporin_N 0.72 58.0 3.33e-01 89.4% 12.1%
3275700 6043.1.1.4 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like › PHAF1 0.72 56.0 3.52e-01 89.4% 16.1%
3740622 12.3.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Aldose_epim 0.71 61.0 3.67e-01 100.0% 85.7%
3263883 5.1.4.32 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nucleoporin_N 0.71 57.0 3.28e-01 89.4% 11.2%
3176357 5.1.5.4 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DPPIV_N 0.70 54.0 3.06e-01 89.4% 8.4%
3273863 220.1.1.44 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › POB3_N 0.70 55.0 4.26e-01 89.4% 40.0%
3400083 5.1.5.18 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Vps16_N 0.70 60.0 3.64e-01 95.7% 88.7%
3418904 284.1.3.0 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain 0.70 57.0 4.48e-01 91.5% 47.0%
3272249 376.1.1.6 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-MIZ 0.70 53.0 4.16e-01 83.0% 100.0%
3334541 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.69 58.0 4.20e-01 95.7% 73.6%
3497302 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.69 57.0 4.14e-01 95.7% 72.9%
3591016 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.69 56.0 4.76e-01 89.4% 57.3%
3221746 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.69 56.0 3.54e-01 91.5% 23.3%
3425128 868.1.1.0 ↗ a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related 0.69 56.0 3.78e-01 91.5% 60.0%
3967552 375.1.1.71 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF2387 0.68 53.0 5.46e-01 87.2% 93.3%
3167877 5.1.4.32 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Nucleoporin_N 0.68 54.0 3.05e-01 89.4% 9.4%
3183454 5.1.5.88 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Nucleoporin_N 0.68 53.0 3.02e-01 89.4% 10.0%
3974426 9.4.1.0 ↗ beta barrels › Lipocalins/Streptavidin › D-aminopeptidase, middle and C-terminal domains › D-aminopeptidase, middle and C-terminal domains 0.67 57.0 4.81e-01 100.0% 56.5%
3363154 6043.1.1.4 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like › PHAF1 0.67 52.0 4.37e-01 89.4% 48.8%
3997284 6043.1.1.4 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like › PHAF1 0.67 53.0 4.86e-01 89.4% 71.4%
3841970 6043.1.1.4 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like › PHAF1 0.67 53.0 4.44e-01 89.4% 52.4%
3369784 809.1.1.5 ↗ a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP › PHAF1 0.67 51.0 4.34e-01 89.4% 49.4%
4052154 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.67 55.0 3.76e-01 93.6% 27.1%
3390821 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.66 52.0 4.40e-01 87.2% 57.5%
174442 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.66 57.0 3.36e-01 97.9% 82.6%
3931122 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.66 49.0 3.95e-01 89.4% 41.1%
3408236 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.65 52.0 3.82e-01 87.2% 35.2%
3705575 220.1.1.128 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_SPT16 0.65 52.0 3.59e-01 89.4% 27.9%
4237612 3006.1.1.6 ↗ a+b two layers › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › Sm-Like archaeal protein Smap3, C-terminal domain › CPSF73-100_C 0.65 51.0 4.24e-01 87.2% 51.8%
3822279 239.3.1.1 ↗ beta barrels › Ribosomal protein L25-like › FAS1 domain › FAS1 domain › Fasciclin 0.65 56.0 3.97e-01 100.0% 34.7%
3690503 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.65 53.0 3.98e-01 91.5% 38.5%
3237575 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.65 56.0 3.45e-01 100.0% 19.6%
4681650 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.64 54.0 3.66e-01 95.7% 26.9%
3427945 284.1.3.0 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain 0.64 51.0 4.06e-01 91.5% 47.0%
3610629 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.64 49.0 3.32e-01 87.2% 35.8%
4927064 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.64 54.0 3.72e-01 100.0% 50.9%
3199835 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 50.0 4.34e-01 89.4% 61.3%
3780515 10.1.1.8 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › SPRY 0.62 52.0 3.61e-01 100.0% 57.7%
3861692 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.62 52.0 3.33e-01 100.0% 39.2%
3788344 5.1.4.337 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, WD40_CDC20-Fz 0.62 52.0 3.07e-01 93.6% 21.4%
3763418 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.61 49.0 4.07e-01 91.5% 52.2%
2140348 210.1.1.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.61 53.0 3.55e-01 100.0% 65.2%
4347651 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.61 51.0 3.44e-01 95.7% 38.9%
3602037 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.60 49.0 3.67e-01 89.4% 36.7%
3206278 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.60 44.0 3.21e-01 85.1% 43.1%
3917877 5.1.1.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed › Hemopexin 0.60 50.0 3.37e-01 100.0% 86.5%
3300116 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.59 45.0 3.59e-01 87.2% 41.0%
3985570 11.1.4.125 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › FimH_man-bind 0.58 39.0 3.28e-01 70.2% 55.6%
3701133 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.58 42.0 2.81e-01 91.5% 18.6%
3777215 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 45.0 3.64e-01 89.4% 44.0%
3903484 220.1.1.64 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C1_MyoVII 0.58 47.0 3.64e-01 89.4% 38.2%
3228794 389.1.2.0 ↗ few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain 0.57 47.0 4.26e-01 100.0% 81.4%
1933320 2008.1.1.76 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › SwaI-like 0.56 41.0 2.77e-01 85.1% 30.1%
3224408 209.1.1.0 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like 0.56 51.0 3.32e-01 97.9% 93.9%
4092565 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.56 43.0 3.14e-01 95.7% 50.6%
4021196 270.1.1.0 ↗ beta barrels › FMT C-terminal domain-like › FMT C-terminal domain-related › FMT C-terminal domain-related 0.54 41.0 3.13e-01 89.4% 35.6%
3510676 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 46.0 3.77e-01 100.0% 49.5%
3463325 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.51 43.0 2.75e-01 100.0% 25.9%