Back to structures

NC_055915.1__YP_010114526.1__KNV73_gp157__00114

Bact-Vir

NC_055915.1__YP_010114526.1__KNV73_gp157__00114

Identity

Accession:
NC_055915 ↗
Kingdom:
phage

Quality

73.2 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 8-64
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.69 50.0 4.23e-01 78.9% 75.5%
1ukfA00 3.90.70.20 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.65 53.0 3.71e-01 89.5% 43.1%
1kq1H00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.65 51.0 4.85e-01 84.2% 86.4%
4limA00 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.65 55.0 3.39e-01 100.0% 17.3%
1u1sA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.65 51.0 4.90e-01 86.0% 86.4%
3ll3B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 44.0 2.97e-01 75.4% 65.7%
2o2zA00 3.40.50.10680 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › CofD-like domains 0.63 51.0 3.19e-01 89.5% 49.7%
3bh1A03 3.40.140.40 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Domain of unknown function (DUF1846), C-terminal subdomain 0.63 43.0 3.27e-01 71.9% 74.0%
5z06A01 2.60.120.430 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding lectin 0.62 49.0 3.59e-01 91.2% 45.1%
4chkB00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.62 51.0 4.45e-01 94.7% 64.8%
1u3eM02 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 0.61 48.0 4.57e-01 87.7% 88.2%
1oeyL00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.60 49.0 4.17e-01 94.7% 61.2%
2yn5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 48.0 4.37e-01 91.2% 79.7%
5owvD01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 46.0 3.19e-01 89.5% 30.6%
1g71A01 3.90.920.10 Alpha Beta › Alpha-Beta Complex › DNA primase, PRIM domain › DNA primase, PRIM domain 0.59 48.0 3.32e-01 96.5% 28.0%
1bnkA00 3.10.300.10 Alpha Beta › Roll › 3-methyladenine DNA Glycosylase; Chain A › Methylpurine-DNA glycosylase (MPG) 0.59 44.0 3.13e-01 82.5% 72.0%
6vtmB00 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 47.0 4.03e-01 89.5% 65.6%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.59 44.0 3.87e-01 86.0% 74.0%
4kncA02 2.60.120.1380 Mainly Beta › Sandwich › Jelly Rolls › C-terminal carbohydrate-binding module 0.59 47.0 3.78e-01 89.5% 87.2%
2kkcA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.59 45.0 3.86e-01 87.7% 57.0%
1y96D00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.59 46.0 4.13e-01 87.7% 78.3%
1yn3A00 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.58 46.0 3.92e-01 89.5% 63.3%
1xf1A02 3.50.30.30 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › 0.58 43.0 3.29e-01 84.2% 85.1%
2asfA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 42.0 3.42e-01 82.5% 52.8%
3ffjA04 2.60.40.4040 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 48.0 3.78e-01 96.5% 56.7%
2fg9A01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 41.0 3.10e-01 78.9% 47.2%
1t9mA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 41.0 2.92e-01 80.7% 37.3%
2iciA01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.56 44.0 3.36e-01 89.5% 88.6%
2fhqA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 41.0 3.26e-01 82.5% 47.4%
1ywlA00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.56 43.0 3.87e-01 96.5% 71.9%
2hhzA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 42.0 3.36e-01 89.5% 49.3%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 42.0 3.66e-01 87.7% 79.6%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.55 43.0 3.45e-01 91.2% 48.1%
2a8pA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.55 45.0 3.18e-01 93.0% 76.6%
6rptC00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 44.0 3.61e-01 91.2% 75.9%
1vl7A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 41.0 3.31e-01 87.7% 48.1%
5h5oA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 43.0 3.41e-01 87.7% 56.0%
3gasB02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 42.0 3.16e-01 89.5% 40.5%
2m6pA00 2.20.28.270 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › RNA polymerase-binding protein A 0.55 36.0 3.92e-01 70.2% 89.1%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.55 39.0 3.20e-01 77.2% 46.9%
2i02A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.54 39.0 3.14e-01 82.5% 45.7%
4h3wA01 2.60.290.20 Mainly Beta › Sandwich › Hypothetical Protein Tm1070; Chain: A › Protein of unknown function (DUF4621), C-terminal domain 0.54 43.0 3.42e-01 89.5% 51.2%
6qlyA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 43.0 3.96e-01 96.5% 78.3%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.53 36.0 3.40e-01 71.9% 59.2%
6j0qA02 2.40.30.120 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Positive stranded ssRNA viruses 0.53 41.0 3.48e-01 89.5% 86.2%
3elkA00 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 0.53 36.0 3.10e-01 73.7% 79.0%
4jx0A02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.53 40.0 3.18e-01 91.2% 66.4%
3qfhA01 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.53 39.0 3.84e-01 84.2% 98.5%
6z9cA01 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.52 40.0 3.30e-01 91.2% 78.7%
2qsdB02 3.50.100.10 Alpha Beta › 3-Layer(bba) Sandwich › protein il1583 fold › protein il1583 domain 0.52 39.0 3.63e-01 86.0% 69.2%
2re7A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 39.0 3.17e-01 91.2% 55.3%
3in6A02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 41.0 3.30e-01 91.2% 76.1%
6jzaA00 3.30.60.30 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.51 35.0 3.23e-01 94.7% 53.1%
2vfrA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.50 39.0 3.10e-01 89.5% 43.8%
2f1eA00 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.50 38.0 3.14e-01 86.0% 59.5%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3603549 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.68 48.0 4.36e-01 75.4% 78.2%
3574742 4.1.1.47 beta barrels › SH3 › SH3 › SH3 › Gemin6 0.65 58.0 4.98e-01 100.0% 75.6%
3941506 2002.1.1.16 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Bac_luciferase 0.65 49.0 3.04e-01 82.5% 21.5%
3624163 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.65 57.0 4.92e-01 100.0% 80.0%
4997210 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.64 49.0 4.31e-01 86.0% 70.0%
3942510 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.64 49.0 4.20e-01 86.0% 65.3%
3936130 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.64 55.0 4.69e-01 100.0% 77.9%
3725727 3792.1.1.0 beta sandwiches › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain › 26S proteasome subunit Rpn2 C-terminal domain 0.63 51.0 4.50e-01 89.5% 60.0%
4998612 862.1.1.1 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.63 54.0 3.59e-01 98.2% 30.0%
4658841 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.63 44.0 3.66e-01 75.4% 99.0%
3819239 221.1.1.13 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › AUX_IAA 0.63 54.0 4.61e-01 98.2% 67.4%
5001166 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.63 47.0 3.67e-01 84.2% 60.7%
3227231 822.1.1.1 a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.63 43.0 4.18e-01 71.9% 68.3%
3839138 2004.1.1.36 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.62 47.0 3.08e-01 84.2% 26.9%
4397568 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.62 48.0 4.17e-01 86.0% 70.0%
3415617 379.1.1.1 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_1 0.62 45.0 4.73e-01 91.2% 90.0%
3763290 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.62 50.0 3.91e-01 93.0% 46.2%
4280097 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.61 48.0 4.72e-01 86.0% 88.3%
3715676 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.61 48.0 4.18e-01 87.7% 63.3%
4451993 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.61 47.0 4.67e-01 86.0% 93.3%
4499953 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.60 46.0 4.60e-01 86.0% 93.3%
4623707 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.60 48.0 4.12e-01 91.2% 67.4%
3838472 2004.1.1.36 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.60 46.0 3.04e-01 86.0% 30.4%
3400250 379.1.1.3 few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.60 45.0 4.74e-01 93.0% 94.0%
4022609 101.1.2.115 alpha arrays › HTH › HTH › winged helix domain › CDC27 0.59 47.0 3.58e-01 89.5% 51.7%
4058174 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.59 46.0 4.52e-01 89.5% 92.3%
4073433 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.59 47.0 4.30e-01 91.2% 87.5%
3666940 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.59 48.0 3.97e-01 100.0% 52.5%
4031792 2004.1.1.36 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Dynamin_N 0.59 45.0 3.06e-01 86.0% 27.0%
4669741 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.59 47.0 4.08e-01 93.0% 69.5%
3598125 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.58 46.0 4.37e-01 96.5% 90.7%
3476233 221.1.1.6 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.58 48.0 4.16e-01 100.0% 69.0%
4557537 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.57 45.0 3.99e-01 91.2% 74.4%
3971569 821.1.1.0 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.57 45.0 4.06e-01 91.2% 78.8%
3224294 5050.1.1.32 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Acatn 0.57 42.0 2.55e-01 86.0% 83.3%
3403429 221.1.1.12 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RBD 0.56 47.0 4.16e-01 98.2% 68.9%
4293453 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.56 48.0 4.38e-01 100.0% 90.0%
3932124 5050.1.1.32 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Acatn 0.56 42.0 2.86e-01 86.0% 74.4%
3252117 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.56 44.0 2.85e-01 87.7% 26.8%
3363261 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.56 46.0 3.63e-01 98.2% 57.8%
5049159 7516.1.1.1 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.56 43.0 2.88e-01 89.5% 26.4%
3481861 221.1.1.36 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N 0.56 44.0 4.07e-01 93.0% 75.0%
3727868 4121.1.1.2 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like 0.56 47.0 2.98e-01 93.0% 35.4%
3598592 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.56 44.0 3.35e-01 87.7% 50.0%
4953373 1.1.5.8 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Putative_PNPOx 0.56 43.0 3.41e-01 89.5% 50.4%
3226828 10.4.1.0 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.55 43.0 3.48e-01 91.2% 42.4%
4271172 1.3.1.2 beta barrels › cradle loop barrel › DP2 DPBB-1 domain › DP2 DPBB-1 domain › PolC_DP2_central 0.55 42.0 3.26e-01 87.7% 41.4%
4984907 284.1.1.1 a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.55 41.0 3.41e-01 86.0% 84.3%
3215147 10.32.1.5 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Ephrin_lbd 0.54 42.0 3.03e-01 87.7% 48.3%
None 0.53 42.0 3.61e-01 96.5% 57.1%
4110075 1.1.2.21 beta barrels › cradle loop barrel › RIFT-related › double psi › PolC_DP2_central+PolC_DP2_cat 0.52 39.0 2.78e-01 87.7% 28.4%
3364027 101.1.2.245 alpha arrays › HTH › HTH › winged helix domain › PORR 0.52 35.0 2.47e-01 70.2% 40.9%
3569598 101.1.2.111 alpha arrays › HTH › HTH › winged helix domain › RQC 0.50 33.0 2.67e-01 70.2% 82.1%
3954764 316.1.1.68 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › PF28438 0.50 36.0 3.44e-01 84.2% 65.3%
4295284 1077.1.1.1 few secondary structure elements › RelA zinc-finger domain › RelA zinc-finger domain › RelA zinc-finger domain › RelA_RIS 0.50 36.0 3.44e-01 84.2% 65.3%