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LacPavin_0818_WC40_scaffold_30711_prodigal-single.1__X__X__00037

Bact-Vir

LacPavin_0818_WC40_scaffold_30711_prodigal-single.1__X__X__00037

Identity

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 3-82
PDB
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1f9cA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.66 52.0 4.53e-01 85.0% 57.4%
3k7cA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 40.0 3.65e-01 95.0% 46.3%
1fguB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.65 45.0 3.84e-01 93.8% 46.0%
2qnuA00 3.40.1730.10 Alpha Beta › 3-Layer(aba) Sandwich › pa0076 fold › pa0076 domain 0.65 55.0 4.11e-01 96.2% 56.9%
4jhmA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.64 52.0 4.60e-01 88.7% 65.8%
2pmqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.64 51.0 4.38e-01 87.5% 60.5%
1jkfA03 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.64 41.0 4.60e-01 80.0% 86.7%
2fauA02 2.60.40.640 Mainly Beta › Sandwich › Immunoglobulin-like › 0.64 43.0 3.65e-01 71.2% 91.2%
3ijtB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.63 42.0 3.56e-01 70.0% 95.8%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.61 48.0 4.23e-01 86.3% 84.6%
2qddA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 48.0 4.09e-01 86.3% 57.7%
3volA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.60 42.0 3.54e-01 73.8% 85.5%
6f1uK02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.60 45.0 3.73e-01 81.2% 53.1%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.59 52.0 4.45e-01 100.0% 63.9%
2pndA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 42.0 3.69e-01 75.0% 96.6%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 46.0 4.16e-01 97.5% 62.6%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.57 40.0 4.11e-01 82.5% 77.3%
3gd6A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.57 43.0 3.70e-01 85.0% 47.9%
1p1jA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.57 39.0 3.51e-01 96.2% 50.4%
1fguB01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 45.0 4.12e-01 100.0% 66.7%
4akrA02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.56 42.0 3.49e-01 81.2% 53.7%
4eg9A00 2.50.20.40 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › 0.56 40.0 2.91e-01 76.2% 51.9%
1u9tA02 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.55 45.0 3.60e-01 91.3% 52.7%
4nspA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.55 41.0 3.00e-01 81.2% 28.2%
3e0yA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.54 49.0 3.93e-01 100.0% 84.5%
3k7uC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 44.0 4.20e-01 92.5% 94.9%
1gr0A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.54 40.0 3.98e-01 78.8% 91.7%
1p0zA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.53 39.0 3.31e-01 77.5% 90.1%
6x5vA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.56e-01 75.0% 76.0%
1nbwA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 38.0 3.31e-01 77.5% 49.2%
6k96B02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.52 39.0 3.67e-01 78.8% 92.8%
3ua3A03 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.52 38.0 2.86e-01 77.5% 47.3%
4ew7A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.52 39.0 3.51e-01 81.2% 95.6%
2yrlA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 37.0 3.66e-01 75.0% 84.3%
3pqvA02 3.30.360.20 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › RNA 3'-terminal phosphate cyclase, insert domain 0.51 40.0 3.81e-01 87.5% 99.0%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.51 40.0 3.39e-01 90.0% 55.4%
3jvgA01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.50 41.0 3.21e-01 96.2% 41.0%
4bg7A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.50 37.0 3.51e-01 80.0% 72.4%
5icuA00 2.60.40.1220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 36.0 3.39e-01 76.2% 96.1%
2c9jA00 2.40.155.10 Mainly Beta › Beta Barrel › Green Fluorescent Protein › Green fluorescent protein 0.50 43.0 3.25e-01 100.0% 73.7%
4jf6A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 41.0 3.04e-01 95.0% 100.0%
ECOD (70)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5053329 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.75 53.0 4.61e-01 78.8% 49.2%
5027780 252.2.1.0 a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.74 52.0 5.87e-01 73.8% 100.0%
4593266 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.72 52.0 5.36e-01 97.5% 80.0%
3743107 227.1.1.11 a+b two layers › DNA clamp › DNA clamp › DNA clamp › Hus1 0.70 45.0 3.73e-01 72.5% 37.9%
4964647 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.69 49.0 4.71e-01 93.8% 65.6%
3571085 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.66 57.0 4.99e-01 98.8% 73.6%
5010618 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 44.0 4.87e-01 91.3% 87.3%
3446498 2.1.1.76 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.66 51.0 4.17e-01 93.8% 46.4%
5030410 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.65 42.0 4.01e-01 92.5% 55.8%
3240745 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 50.0 3.27e-01 91.3% 18.2%
3908854 2484.1.1.215 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27041 0.63 53.0 3.37e-01 97.5% 17.0%
4009790 246.3.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › DNase I-like › DNase I-like › Exo_endo_phos 0.63 43.0 3.00e-01 71.2% 36.1%
4972572 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.63 48.0 3.10e-01 81.2% 18.6%
None 0.62 52.0 3.39e-01 97.5% 20.2%
4959571 2.4.1.0 beta barrels › OB-fold › MOP-like › MOP-like 0.62 39.0 2.79e-01 95.0% 20.8%
3581555 633.33.1.1 alpha bundles › Bromodomain-like › Rogdi › Rogdi › Rogdi_lz 0.62 42.0 2.88e-01 70.0% 59.4%
4999126 4272.1.1.1 a+b two layers › Nqo5-like › Nqo5-like › Nqo5-like › Complex1_30kDa 0.61 52.0 4.17e-01 95.0% 57.5%
4990321 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.61 45.0 3.29e-01 83.7% 27.8%
4992847 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.60 40.0 4.13e-01 83.7% 72.0%
3451695 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.60 45.0 4.37e-01 80.0% 75.6%
4978131 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.60 45.0 3.13e-01 81.2% 24.4%
5004589 5.1.2.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.59 47.0 4.24e-01 88.7% 62.7%
169967 4216.1.1.2 a+b duplicates or obligate multimers › Heme iron utilization protein-like › Heme iron utilization protein-like › Heme iron utilization protein-like › ChuX_HutX 0.59 52.0 4.43e-01 100.0% 63.4%
4177430 7520.1.1.1 a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like › CinA 0.59 45.0 3.70e-01 82.5% 44.7%
5055339 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.59 46.0 3.26e-01 86.3% 64.1%
3939751 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 47.0 3.07e-01 93.8% 17.9%
3220601 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 49.0 3.05e-01 95.0% 16.1%
3765831 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.58 47.0 4.23e-01 90.0% 83.5%
3662007 2003.1.1.283 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › Inos-1-P_synth 0.58 40.0 2.93e-01 96.2% 25.8%
3274239 330.1.1.18 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_DHX29 0.58 45.0 3.98e-01 91.3% 57.4%
3267504 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.58 48.0 3.00e-01 93.8% 36.7%
3881647 2485.2.1.1 a+b three layers › Thioredoxin-like › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RNA 3'-terminal phosphate cyclase, RPTC, insert domain › RTC_insert 0.58 46.0 4.21e-01 88.7% 98.2%
3500606 868.1.1.3 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › Med20 0.58 39.0 3.04e-01 70.0% 61.1%
3931674 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 47.0 4.19e-01 100.0% 61.7%
3698019 11.8.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Osmotin-like › Osmotin-like 0.58 45.0 3.77e-01 86.3% 47.6%
3475901 319.1.1.1 beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones › HSP20 0.57 42.0 4.12e-01 97.5% 71.1%
3460838 2484.1.1.157 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF4371 0.57 47.0 3.22e-01 96.2% 24.3%
5041843 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.57 42.0 3.20e-01 80.0% 34.0%
3229203 2484.1.1.50 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Dimer_Tnp_hAT 0.56 46.0 2.93e-01 93.8% 16.2%
3233863 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 46.0 2.95e-01 97.5% 16.7%
4980165 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 42.0 2.67e-01 81.2% 55.9%
5048974 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.55 38.0 3.48e-01 100.0% 51.8%
5013876 2003.1.5.81 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.55 39.0 2.77e-01 73.8% 83.1%
3625857 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.55 47.0 4.04e-01 100.0% 58.5%
3599539 11.8.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Osmotin-like › Osmotin-like 0.55 37.0 2.99e-01 70.0% 66.1%
3214007 145.1.1.1 alpha arrays › F-box domain › F-box domain › F-box domain › F-box 0.55 48.0 4.15e-01 96.2% 85.6%
4988603 2484.1.1.59 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.55 41.0 2.91e-01 85.0% 23.0%
3441179 2.1.1.130 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223 0.54 45.0 3.89e-01 100.0% 58.4%
3230613 3755.3.1.410 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › Nup88 0.54 41.0 2.53e-01 83.7% 15.2%
3807621 2.1.1.348 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF223, Rep-A_N 0.54 45.0 3.11e-01 100.0% 26.5%
3221278 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 42.0 2.92e-01 87.5% 23.9%
5064859 2003.1.5.81 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.54 38.0 2.72e-01 73.8% 95.8%
5068089 283.1.1.0 a+b duplicates or obligate multimers › Creatinase/aminopeptidase-like › Creatinase/aminopeptidase › Creatinase/aminopeptidase 0.54 39.0 3.48e-01 76.2% 96.5%
3704272 2004.1.1.175 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ParA 0.53 41.0 2.75e-01 83.7% 26.3%
3707549 5.1.3.28 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_3 0.53 40.0 2.55e-01 81.2% 52.0%
5004264 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.53 37.0 3.22e-01 95.0% 47.2%
3770448 9.1.1.0 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.53 41.0 3.29e-01 86.3% 97.1%
4948163 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.53 40.0 3.01e-01 85.0% 44.1%
3579994 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 37.0 3.31e-01 75.0% 90.0%
3328840 284.1.2.0 a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases 0.52 36.0 3.61e-01 78.8% 69.4%
4375028 264.2.1.0 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.51 45.0 3.95e-01 100.0% 78.4%
4093339 5085.1.1.1 a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.51 46.0 2.91e-01 100.0% 90.1%
3365937 4.8.1.2 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Chromo_shadow 0.51 35.0 3.89e-01 88.7% 93.3%
5023892 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.51 39.0 3.29e-01 80.0% 91.5%
4944954 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.51 38.0 2.86e-01 81.2% 70.7%
4031111 2003.1.5.151 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_23, Methyltransf_25 0.51 37.0 2.61e-01 76.2% 81.5%
5078190 2484.1.1.18 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.51 42.0 2.93e-01 91.3% 33.6%
3786132 330.1.1.4 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Rad52_Rad22 0.51 39.0 3.32e-01 86.3% 59.3%
4114495 2484.1.1.43 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.51 37.0 2.86e-01 81.2% 67.6%
3368743 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.50 36.0 3.99e-01 91.3% 100.0%