Back to structures

LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00164

Bact-Vir

LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00164

Identity

Kingdom:
phage

Quality

91.9 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 2-68
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l9dA00 3.30.70.2340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Uncharacterised protein PF12112 family, DUF3579 0.65 56.0 4.86e-01 100.0% 82.4%
2k3iA01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 52.0 4.87e-01 91.0% 87.1%
3mb5A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.63 47.0 3.36e-01 80.6% 86.5%
2mq8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.61 51.0 4.36e-01 95.5% 79.5%
2hfvA01 3.30.70.790 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › UreE, C-terminal domain 0.61 52.0 5.05e-01 98.5% 96.1%
2c2nA02 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.60 51.0 4.95e-01 97.0% 92.2%
1r89A03 3.30.70.590 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Poly(A) polymerase predicted RNA binding domain 0.59 51.0 4.11e-01 97.0% 74.6%
5wt3A01 3.30.70.2580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 44.0 4.51e-01 97.0% 87.7%
3encA00 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.58 47.0 4.49e-01 89.6% 84.8%
4wsqB00 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.58 46.0 3.02e-01 89.6% 51.6%
3vteA03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.58 46.0 3.44e-01 91.0% 41.6%
2nraC01 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 0.58 39.0 3.10e-01 85.1% 32.0%
2qpzA00 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.57 41.0 3.65e-01 77.6% 100.0%
2zxdA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 40.0 3.66e-01 86.6% 54.9%
2ckwA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.57 47.0 4.06e-01 98.5% 87.9%
2x49A02 3.40.5.40 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › FHIPEP family, domain 2 0.57 38.0 4.20e-01 95.5% 100.0%
4v1al00 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.55 43.0 3.57e-01 89.6% 51.1%
2vz6B01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.55 40.0 3.78e-01 79.1% 92.8%
3cx5B02 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.55 45.0 3.72e-01 97.0% 84.4%
5gt8D02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.54 43.0 3.66e-01 98.5% 50.0%
5dx9A01 3.30.70.1020 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trehalose-6-phosphate phosphatase related protein; domain 2 0.54 39.0 3.86e-01 79.1% 70.8%
2abyA00 3.30.70.1980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Uncharacterised protein PF09406, DUF2004 0.54 45.0 3.83e-01 97.0% 92.6%
1eu8A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.54 42.0 3.10e-01 86.6% 74.2%
2onlC01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 41.0 3.82e-01 83.6% 77.9%
1jw3A00 3.55.10.10 Alpha Beta › 3-Layer(bab) Sandwich › Archease, Possible Chaperone; Chain: A; domain 1 › Archease domain 0.54 40.0 3.22e-01 80.6% 84.3%
5adxJ01 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.53 39.0 3.53e-01 79.1% 93.5%
6vudA02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.53 42.0 4.09e-01 89.6% 92.0%
2g0iA00 3.30.70.1490 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cysteine protease Prp 0.53 43.0 3.78e-01 95.5% 91.9%
1wqsA01 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.53 38.0 3.78e-01 95.5% 72.9%
2fm8B00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.52 43.0 3.56e-01 94.0% 77.6%
2zylA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.52 44.0 3.58e-01 98.5% 89.6%
5qinA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 43.0 3.99e-01 92.5% 94.1%
1tuwA00 3.30.70.1090 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel. 0.52 43.0 3.83e-01 98.5% 89.6%
3nynA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 41.0 3.24e-01 92.5% 54.4%
ECOD (65)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5013039 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.69 52.0 4.82e-01 92.5% 63.5%
4139990 304.11.1.2 a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.66 56.0 5.29e-01 100.0% 92.9%
3966305 327.16.1.0 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system 0.63 51.0 4.94e-01 91.0% 84.0%
4942002 304.51.1.0 a+b two layers › Alpha-beta plaits › CRISPR transcript (pre-crRNA) processing endoribonuclease-related › CRISPR transcript (pre-crRNA) processing endoribonuclease-related 0.63 52.0 5.08e-01 94.0% 97.3%
3803799 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.62 51.0 3.32e-01 91.0% 50.5%
3985634 3313.1.1.1 a+b two layers › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › DUF406 0.62 51.0 4.49e-01 91.0% 96.0%
5036264 304.39.1.1 a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.61 48.0 4.25e-01 89.6% 70.5%
3252961 708.1.1.0 beta complex topology › ETN0001 domain-like › ETN0001 domain-like › NAC/WRKY/GCM/WOPR domain 0.61 44.0 4.73e-01 79.1% 89.7%
4636747 256.1.1.1 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like › Archease 0.61 41.0 4.10e-01 70.1% 67.1%
4940779 256.1.1.0 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.61 41.0 4.10e-01 70.1% 67.1%
4985331 256.1.1.1 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like › Archease 0.61 41.0 3.99e-01 70.1% 62.7%
4120044 304.11.1.2 a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.61 52.0 5.06e-01 100.0% 94.7%
3602755 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.61 44.0 4.29e-01 95.5% 69.3%
4948386 3501.1.1.1 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.61 50.0 4.73e-01 89.6% 83.7%
5209 304.5.1.6 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2007 0.61 52.0 5.09e-01 98.5% 98.7%
4248039 304.11.1.2 a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase › SAT 0.60 51.0 4.72e-01 100.0% 81.1%
4995882 3501.1.1.1 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.60 49.0 4.75e-01 89.6% 92.0%
4959038 304.39.1.1 a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.60 48.0 4.46e-01 89.6% 85.9%
3683288 256.1.1.0 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.60 40.0 4.17e-01 73.1% 76.7%
4273051 304.7.1.2 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Inhibitor_I9 0.59 50.0 4.40e-01 95.5% 77.0%
3943937 205.1.1.44 a+b two layers › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › 4Fe-4S ferredoxin › Fer4, Fer4_11 0.59 47.0 3.54e-01 91.0% 90.6%
4943544 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.58 49.0 4.86e-01 98.5% 100.0%
3275389 304.7.1.0 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors 0.58 49.0 4.77e-01 97.0% 94.7%
3601349 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.58 51.0 2.84e-01 100.0% 43.2%
3592448 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.58 47.0 2.97e-01 89.6% 55.1%
5042213 3501.1.1.1 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.58 48.0 4.51e-01 89.6% 83.7%
3782802 304.15.1.0 a+b two layers › Alpha-beta plaits › Viral DNA-binding domain › Viral DNA-binding domain 0.58 48.0 3.67e-01 98.5% 76.1%
4069527 304.7.1.2 a+b two layers › Alpha-beta plaits › Protease propeptides/inhibitors › Protease propeptides/inhibitors › Inhibitor_I9 0.58 50.0 4.64e-01 97.0% 91.8%
5026882 3501.1.1.1 a+b two layers › protein PCC1 › protein PCC1 › protein PCC1 › Pcc1 0.57 47.0 4.42e-01 89.6% 86.3%
4957682 66.1.1.1 beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.57 40.0 3.58e-01 76.1% 100.0%
4970335 304.39.1.1 a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain › MS_channel_3rd 0.57 46.0 4.33e-01 97.0% 92.2%
3993006 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.57 45.0 2.97e-01 89.6% 52.8%
3264347 206.1.1.70 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, ABC1 0.57 45.0 3.07e-01 89.6% 56.2%
3652778 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 45.0 2.87e-01 89.6% 51.0%
1320691 312.1.1.12 a+b three layers › HIT-like › HIT-related › HIT-related › DUF4931_C 0.56 44.0 3.74e-01 89.6% 91.7%
3923792 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 45.0 2.98e-01 89.6% 54.1%
4945238 3016.1.1.0 a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases 0.56 46.0 3.66e-01 95.5% 58.0%
3723867 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 45.0 2.92e-01 89.6% 48.1%
4029397 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 44.0 2.86e-01 89.6% 47.9%
3573006 327.11.2.54 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_PARP14_5 0.55 44.0 4.28e-01 89.6% 88.0%
4037939 66.1.1.1 beta sandwiches › ISP domain › ISP domain › ISP domain › Rieske 0.55 41.0 3.21e-01 80.6% 73.5%
3322497 304.8.1.45 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › bHLH-TF_ACT-like_plant 0.55 44.0 4.16e-01 88.1% 90.0%
5000456 1036.1.1.1 a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.55 45.0 3.90e-01 97.0% 82.6%
3488160 206.1.1.4 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase,TGF_beta_GS 0.55 44.0 2.78e-01 89.6% 40.5%
3698504 601.23.1.4 alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.55 43.0 2.80e-01 85.1% 66.1%
4098707 304.159.1.1 a+b two layers › Alpha-beta plaits › Alpha-beta plait domain in NisB › Alpha-beta plait domain in NisB › Lant_dehydr_C 0.55 45.0 4.08e-01 98.5% 83.0%
3738021 304.8.1.105 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › PF30953 0.54 44.0 3.77e-01 95.5% 65.0%
3210215 325.1.5.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Ribosomal protein L10e 0.54 45.0 3.77e-01 97.0% 60.5%
5054757 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.54 43.0 3.57e-01 89.6% 77.2%
5012700 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.54 42.0 3.94e-01 97.0% 69.4%
3885545 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.53 43.0 4.34e-01 92.5% 93.8%
3934544 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 43.0 2.77e-01 89.6% 45.2%
3220487 256.1.1.0 a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.53 35.0 3.75e-01 71.6% 81.8%
4098715 304.4.1.7 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Cyclase_polyket 0.53 45.0 3.89e-01 98.5% 86.2%
5049391 310.1.1.2 a+b two layers › RRF/tRNA synthetase additional domain-like › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arg_tRNA_synt_N 0.53 39.0 3.49e-01 83.6% 74.3%
2323806 304.8.1.14 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › CASTOR1_ACT-like 0.53 43.0 3.92e-01 97.0% 76.0%
354818 150.1.2.3 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Heme oxygenase/Ribonucleotide reductase › Phenol_Hydrox 0.52 41.0 2.56e-01 91.0% 30.7%
3280191 304.4.1.7 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › Cyclase_polyket 0.52 44.0 3.89e-01 98.5% 90.5%
2704750 206.1.1.70 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase, ABC1 0.52 39.0 2.58e-01 80.6% 62.2%
3284662 304.4.1.4 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.52 42.0 3.88e-01 95.5% 97.8%
4964003 241.1.1.29 a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › DUF5813 0.51 41.0 3.31e-01 94.0% 73.5%
3438338 1.1.11.0 beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain 0.51 41.0 3.99e-01 89.6% 82.7%
3288338 1.1.7.27 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › DUF1905 0.51 41.0 3.76e-01 95.5% 66.7%
4027199 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.50 41.0 3.81e-01 97.0% 78.9%
3789001 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 39.0 2.29e-01 88.1% 8.8%