Back to structures

NC_041929.1__YP_009601471.1__FDH46_gp132__00346

Bact-Vir

NC_041929.1__YP_009601471.1__FDH46_gp132__00346

Identity

Accession:
NC_041929 ↗
Kingdom:
phage

Quality

82.9 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 12-82
PDB
Domain cluster: representative
CATH (49)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2dt9A01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.69 51.0 5.09e-01 83.1% 75.7%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.68 46.0 4.64e-01 70.4% 71.8%
2f8xC03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 45.0 4.10e-01 84.5% 54.3%
4fh3A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.63 56.0 4.67e-01 100.0% 72.8%
6u7jA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 46.0 4.22e-01 84.5% 60.7%
5ds1A00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 48.0 4.39e-01 83.1% 100.0%
3oajA02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.61 42.0 3.38e-01 71.8% 73.6%
3h7jA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 52.0 4.48e-01 93.0% 82.7%
3glaA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 48.0 4.33e-01 85.9% 97.9%
1vi7A01 3.30.230.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › Impact, N-terminal domain 0.60 45.0 3.71e-01 81.7% 69.6%
1shsA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 53.0 4.55e-01 100.0% 87.8%
3tekA00 3.30.470.50 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › 0.59 45.0 3.74e-01 84.5% 84.2%
2db2A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.59 41.0 3.72e-01 95.8% 54.3%
1a1xA00 2.40.15.10 Mainly Beta › Beta Barrel › Proto-oncogene - Oncogene Product P14tcl1 › TCL1/MTCP1 0.59 50.0 4.41e-01 94.4% 84.9%
3w1zC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 51.0 4.27e-01 100.0% 86.2%
3d2lA02 2.20.25.110 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › S-adenosyl-L-methionine-dependent methyltransferases 0.59 36.0 3.89e-01 93.0% 71.4%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 37.0 3.70e-01 98.6% 63.4%
4emyA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 44.0 3.33e-01 100.0% 34.1%
2xcmC00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 46.0 4.27e-01 87.3% 84.8%
2cjpA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.58 43.0 2.85e-01 81.7% 71.2%
3aabB00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 46.0 4.03e-01 87.3% 87.7%
3besR02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 44.0 3.82e-01 84.5% 69.4%
2rb7A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.56 50.0 3.42e-01 100.0% 43.1%
1i1rA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 43.0 3.92e-01 85.9% 69.0%
3i6eA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.55 38.0 3.42e-01 71.8% 98.1%
4liqE05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 42.0 3.83e-01 84.5% 73.0%
2xskA00 2.60.40.2420 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 43.0 3.92e-01 84.5% 70.5%
3p24A01 2.40.128.470 Mainly Beta › Beta Barrel › Lipocalin › 0.55 45.0 3.55e-01 91.5% 60.1%
4h5bA00 3.30.1460.70 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.54 42.0 3.36e-01 85.9% 50.7%
6ziwI01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 43.0 4.23e-01 98.6% 79.5%
3ju8A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 42.0 2.90e-01 88.7% 50.2%
4zm3B01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 48.0 3.84e-01 100.0% 50.0%
3isyA00 2.60.40.2360 Mainly Beta › Sandwich › Immunoglobulin-like › Intracellular proteinase inhibitor BsuPI 0.54 42.0 3.59e-01 84.5% 69.2%
2ocgA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 43.0 3.03e-01 90.1% 46.5%
5ng7A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 42.0 2.84e-01 87.3% 33.9%
3b5hA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 37.0 3.63e-01 84.5% 64.6%
1vgyA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.54 46.0 3.20e-01 100.0% 42.1%
3kdaA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 45.0 3.00e-01 93.0% 98.6%
3rh9A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.52 40.0 2.81e-01 88.7% 52.6%
6z9cA01 2.60.40.1470 Mainly Beta › Sandwich › Immunoglobulin-like › ApaG domain 0.52 44.0 3.77e-01 98.6% 73.0%
3qitB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 42.0 2.84e-01 90.1% 97.2%
2zvfA02 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.52 37.0 3.32e-01 77.5% 95.3%
4lqzA00 2.40.128.570 Mainly Beta › Beta Barrel › Lipocalin › Protein of unknown function DUF4909 0.52 45.0 3.72e-01 100.0% 64.1%
3ke3A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 45.0 3.92e-01 100.0% 64.3%
4i3fA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 41.0 2.82e-01 91.5% 38.5%
3u1kC01 3.30.230.70 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › GHMP Kinase, N-terminal domain 0.51 42.0 3.01e-01 94.4% 41.6%
1pg6A00 3.60.160.10 Alpha Beta › 4-Layer Sandwich › Double-stranded beta-helix › Mitochondrial biogenesis AIM24 0.50 37.0 2.75e-01 83.1% 38.0%
3ke6B01 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.50 42.0 3.09e-01 100.0% 64.3%
7otsB01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 37.0 2.55e-01 80.3% 93.3%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5023704 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.75 69.0 5.36e-01 100.0% 66.2%
3952545 211.1.1.0 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.75 44.0 4.30e-01 100.0% 53.2%
3984013 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.72 65.0 6.28e-01 100.0% 91.3%
3981553 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.71 64.0 5.45e-01 100.0% 63.5%
3946792 310.3.1.3 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN 0.69 62.0 5.29e-01 100.0% 63.5%
4929462 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.69 61.0 5.19e-01 100.0% 60.9%
4031301 211.1.1.0 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.69 42.0 4.13e-01 100.0% 57.3%
4235437 306.3.1.1 a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1 0.69 48.0 4.39e-01 85.9% 54.7%
5010025 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.68 47.0 3.86e-01 100.0% 41.7%
4954535 310.3.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.68 60.0 5.50e-01 100.0% 81.1%
3602537 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.68 60.0 4.54e-01 100.0% 64.1%
4939124 873.1.1.19 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › MetOD1 0.67 61.0 4.73e-01 100.0% 54.0%
3881061 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.67 38.0 3.98e-01 100.0% 60.0%
4948475 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.67 60.0 4.79e-01 100.0% 61.6%
4927597 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.66 58.0 4.88e-01 100.0% 57.6%
5065080 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.66 58.0 4.94e-01 100.0% 61.7%
3365716 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.65 49.0 4.64e-01 80.3% 69.4%
5023931 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.65 35.0 3.52e-01 90.1% 51.4%
3410333 11.1.1.673 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CUT_N 0.65 45.0 3.88e-01 84.5% 45.2%
3438388 331.4.1.2 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › NAF 0.65 46.0 3.69e-01 73.2% 60.7%
4928447 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.65 56.0 4.79e-01 97.2% 60.0%
4037873 304.36.1.1 a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › DUF520 0.64 57.0 5.12e-01 100.0% 84.0%
3588048 304.156.1.0 a+b two layers › Alpha-beta plaits › DNA translocase FtsK N-terminal domain › DNA translocase FtsK N-terminal domain 0.64 56.0 4.97e-01 100.0% 94.3%
3724051 6044.1.1.0 a+b three layers › DUF1827-like › DUF1827-like › DUF1827-like 0.63 56.0 4.91e-01 100.0% 81.0%
3667551 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 55.0 5.12e-01 97.2% 92.2%
3643150 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.63 49.0 4.59e-01 83.1% 70.6%
4928823 873.1.1.0 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain 0.63 54.0 4.57e-01 97.2% 59.2%
5004031 873.1.1.1 a+b complex topology › H-NOX domain › H-NOX domain › H-NOX domain › V4R 0.61 53.0 4.12e-01 100.0% 57.0%
3430977 213.1.1.0 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.60 42.0 3.20e-01 73.2% 72.4%
4342313 242.1.1.5 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.60 51.0 4.60e-01 97.2% 70.0%
4160031 242.1.1.5 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.59 50.0 4.30e-01 95.8% 61.7%
4142447 242.1.1.5 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.59 49.0 4.41e-01 94.4% 70.0%
4205746 242.1.1.5 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › WhiA_N 0.59 49.0 4.35e-01 94.4% 68.6%
3997443 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.58 47.0 4.67e-01 90.1% 94.7%
3790333 11.1.1.1009 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF26432 0.58 46.0 3.37e-01 85.9% 38.4%
4209707 12.1.1.6 beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Glyco_hydro_42C 0.57 49.0 4.94e-01 95.8% 98.6%
4669668 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.56 49.0 4.45e-01 100.0% 76.0%
4971611 2004.1.1.19 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.56 41.0 3.08e-01 77.5% 81.6%
3508678 300.1.1.2 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › DNase_II 0.56 44.0 3.67e-01 87.3% 87.7%
5013026 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.56 48.0 3.72e-01 100.0% 85.3%
4995152 2011.1.1.6 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M20 0.55 48.0 3.28e-01 100.0% 40.4%
4936979 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.54 47.0 3.87e-01 97.2% 79.2%
3738504 331.4.1.0 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.54 47.0 4.01e-01 93.0% 60.9%
3709691 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.54 39.0 3.15e-01 80.3% 74.4%
3196340 216.1.1.0 a+b two layers › UBC-like › UBC-like › UBC-like 0.54 46.0 3.27e-01 94.4% 46.5%
4978083 2011.1.1.6 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M20 0.54 46.0 3.22e-01 100.0% 40.8%
4928266 225.1.1.3 a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › HATPase_c 0.53 44.0 3.79e-01 98.6% 62.7%
3938890 206.1.2.2 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › SAICAR synthase › PIP5K 0.53 44.0 3.02e-01 100.0% 48.3%
3717203 223.1.1.0 a+b three layers › Profilin-like › sensor domains › sensor domains 0.52 40.0 3.07e-01 87.3% 67.2%
4999029 2011.1.1.6 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M20 0.52 45.0 3.18e-01 100.0% 42.9%
5044825 2011.1.1.6 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Zn-dependent exopeptidases › Zn-dependent exopeptidases › Peptidase_M20 0.52 44.0 3.08e-01 100.0% 40.4%
4964457 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.51 45.0 3.79e-01 100.0% 58.4%
4930952 231.1.2.3 a+b two layers › MocoBD/DmpA-related › MocoBD/DmpA-related › DmpA/ArgJ › CbiZ 0.51 41.0 3.03e-01 91.5% 59.0%
3289437 881.1.1.15 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › DUF3558 0.50 44.0 3.66e-01 100.0% 59.2%