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LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00427

Bact-Vir

LacPavin_0818_WC40_scaffold_238879_prodigal-single.1__X__X__00427

Identity

Kingdom:
phage

Quality

90.4 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 14-76
PDB
Domain cluster: representative
CATH (48)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qwuA03 3.30.70.2160 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.78 53.0 4.08e-01 71.4% 32.4%
3rrkA03 3.30.70.2750 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.73 49.0 4.64e-01 71.4% 58.1%
1itpA00 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.67 42.0 3.95e-01 71.4% 51.9%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.66 39.0 3.84e-01 71.4% 52.1%
6lxgA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.66 50.0 4.82e-01 82.5% 97.3%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.66 47.0 4.29e-01 77.8% 84.3%
1o51A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 44.0 3.96e-01 71.4% 57.3%
2x3gA00 3.30.70.1910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 51.0 4.24e-01 90.5% 77.6%
6lpnA04 3.30.70.2740 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 47.0 4.18e-01 82.5% 81.1%
1utbB01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.63 47.0 3.80e-01 98.4% 40.6%
5w2fA01 3.30.780.10 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor Eif1 › SUI1-like domain 0.63 42.0 3.87e-01 71.4% 51.2%
2mkyA00 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.62 39.0 4.05e-01 71.4% 69.0%
2qv6B02 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.62 40.0 3.26e-01 96.8% 33.6%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.62 44.0 4.11e-01 77.8% 88.1%
1ug8A00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.61 42.0 3.81e-01 73.0% 51.7%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.61 48.0 3.88e-01 92.1% 42.0%
4rpoA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.61 45.0 3.77e-01 100.0% 44.1%
2cg4A02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.61 42.0 3.92e-01 74.6% 92.9%
2p5vA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.60 42.0 3.87e-01 74.6% 92.9%
3ffyA00 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.60 40.0 3.43e-01 71.4% 58.9%
2bj3D02 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.59 40.0 3.72e-01 71.4% 54.3%
3aqpA02 3.30.70.3220 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 45.0 3.34e-01 82.5% 46.3%
3pfeA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.58 48.0 3.13e-01 93.7% 66.7%
6v9qH01 3.30.70.2540 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › CRISPR-associated endoribonuclease Cas6/Csy4 0.58 42.0 3.37e-01 79.4% 53.4%
4c8yA01 3.30.70.1890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 46.0 4.01e-01 92.1% 89.5%
6le1A01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.58 39.0 3.88e-01 71.4% 66.2%
5gneA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.58 46.0 3.07e-01 90.5% 70.3%
6zepA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.57 45.0 2.92e-01 90.5% 60.8%
2ahoB03 3.30.70.1130 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › EIF_2_alpha 0.57 38.0 3.55e-01 71.4% 60.2%
3l4gC04 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.57 40.0 2.71e-01 76.2% 20.8%
5tkwA01 3.30.420.380 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.56 47.0 3.55e-01 96.8% 54.7%
3pm9A04 3.30.70.2740 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 47.0 4.26e-01 95.2% 93.1%
6dgiA03 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.55 37.0 3.69e-01 71.4% 95.6%
6u26A01 3.30.70.80 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Peptidase S8 propeptide/proteinase inhibitor I9 0.55 43.0 3.90e-01 87.3% 78.4%
4pg4B03 3.30.70.3100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 40.0 3.86e-01 81.0% 89.3%
1hbxA01 3.40.1810.10 Alpha Beta › 3-Layer(aba) Sandwich › SRF-like › Transcription factor, MADS-box 0.54 43.0 4.23e-01 93.7% 87.3%
2lfvA00 3.30.70.1070 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Sporulation related repeat 0.54 44.0 3.82e-01 96.8% 70.8%
1vehA01 3.30.300.130 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › Fe-S cluster assembly (FSCA) 0.54 37.0 3.52e-01 73.0% 98.7%
4dmzA02 3.30.70.2880 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 42.0 3.47e-01 95.2% 67.2%
4dzdA01 3.30.70.1200 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 1 0.52 39.0 3.83e-01 82.5% 84.3%
1rlhA02 3.40.1520.10 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1634 › Ta1353-like 0.52 41.0 3.70e-01 96.8% 60.4%
5wt3A01 3.30.70.2580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 40.0 4.04e-01 85.7% 89.2%
2mbfA01 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 0.52 41.0 3.49e-01 100.0% 54.6%
2kl8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.51 38.0 3.53e-01 82.5% 83.5%
2yweA03 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.51 39.0 3.71e-01 88.9% 84.1%
2jvrA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 38.0 3.64e-01 87.3% 91.3%
7bjkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.51 40.0 3.47e-01 95.2% 90.3%
2g47A03 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.51 43.0 3.01e-01 98.4% 82.4%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4945943 304.120.1.19 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI › THUMP 0.78 53.0 5.01e-01 71.4% 61.3%
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 0.72 49.0 4.16e-01 71.4% 51.4%
4938351 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.72 49.0 4.76e-01 71.4% 64.3%
4366817 329.1.1.1 a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › GAD 0.71 59.0 4.62e-01 90.5% 93.1%
3907671 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.70 48.0 4.57e-01 71.4% 60.0%
5081721 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.69 47.0 4.84e-01 71.4% 75.0%
4940223 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.69 47.0 4.67e-01 71.4% 69.2%
4061057 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.68 47.0 4.15e-01 71.4% 55.6%
4113985 304.44.1.0 a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.68 46.0 4.24e-01 71.4% 57.6%
4973750 304.18.1.0 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.68 45.0 4.33e-01 71.4% 58.9%
4205520 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.68 45.0 4.05e-01 71.4% 48.9%
5000612 304.19.1.0 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain 0.66 45.0 4.40e-01 71.4% 64.3%
3386922 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.66 44.0 4.13e-01 71.4% 55.0%
4146821 304.11.1.0 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 0.64 47.0 4.38e-01 79.4% 91.3%
4448399 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.64 43.0 2.84e-01 71.4% 16.8%
4449508 331.2.1.13 a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › DinI 0.64 43.0 4.05e-01 71.4% 67.5%
5005033 304.39.1.0 a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.63 43.0 4.03e-01 71.4% 58.7%
5073850 304.43.1.6 a+b two layers › Alpha-beta plaits › Hypothetical protein TT1725 › Hypothetical protein TT1725 › FLAD1_M 0.63 43.0 4.11e-01 71.4% 60.0%
4988829 304.110.1.1 a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like › Acylphosphatase 0.63 45.0 3.86e-01 79.4% 70.9%
3290652 306.2.1.0 a+b two layers › Glucose permease domain IIB-like › arginine repressor C terminal domain-related › C-terminal domain of arginine repressor 0.63 42.0 3.79e-01 71.4% 48.9%
5076583 304.120.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in ThiI › Ferredoxin-like domain in ThiI 0.62 42.0 4.05e-01 71.4% 60.0%
5016862 7523.1.1.43 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › PBP_like 0.62 53.0 4.42e-01 100.0% 54.2%
4316518 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.62 47.0 4.20e-01 82.5% 93.3%
4995547 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.61 42.0 3.72e-01 74.6% 77.0%
4391265 7523.1.1.15 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II › LysR_substrate 0.60 48.0 4.00e-01 100.0% 48.3%
5035888 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.60 41.0 3.74e-01 71.4% 57.6%
3514906 4.1.1.9 beta barrels › SH3 › SH3 › SH3 › TUDOR 0.59 41.0 3.02e-01 76.2% 88.4%
5077308 304.4.1.1 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.59 41.0 3.55e-01 74.6% 76.2%
3173046 304.162.1.2 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › FLAD1_M 0.58 49.0 4.43e-01 98.4% 94.4%
1823111 304.126.1.4 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C › V_ATPase_I_N 0.58 44.0 3.98e-01 85.7% 84.8%
3574325 2485.1.1.1 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredoxin 0.58 40.0 3.60e-01 88.9% 49.5%
5082453 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.58 40.0 3.64e-01 74.6% 57.8%
4228655 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.57 44.0 3.04e-01 87.3% 34.5%
4126668 304.11.1.0 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 0.57 45.0 3.86e-01 87.3% 78.1%
3603204 304.110.1.1 a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like › Acylphosphatase 0.57 38.0 3.78e-01 71.4% 66.2%
4996337 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.57 36.0 3.71e-01 71.4% 68.3%
4063927 304.24.1.1 a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_C 0.57 44.0 3.29e-01 92.1% 47.9%
5003605 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.56 46.0 4.42e-01 95.2% 92.0%
4212253 304.150.1.1 a+b two layers › Alpha-beta plaits › Adapter protein mecA 2 C-terminal domain › Adapter protein mecA 2 C-terminal domain › MecA 0.56 46.0 4.15e-01 96.8% 80.6%
4250601 186.1.1.0 alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N 0.56 46.0 3.49e-01 96.8% 92.4%
4220147 304.126.1.0 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.56 43.0 3.97e-01 87.3% 77.6%
4553885 304.162.1.1 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain › CinA_KH 0.55 37.0 3.53e-01 71.4% 56.2%
4669919 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.55 37.0 3.42e-01 71.4% 58.8%
3821327 327.6.1.1 a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › NifU 0.55 40.0 3.77e-01 81.0% 95.0%
4129360 304.162.1.0 a+b two layers › Alpha-beta plaits › Competence or damage-inducible protein CinA middle domain › Competence or damage-inducible protein CinA middle domain 0.54 39.0 3.74e-01 77.8% 69.3%
3226297 304.28.1.0 a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.54 41.0 3.83e-01 84.1% 91.3%
4987106 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.54 44.0 3.91e-01 93.7% 68.4%
4952784 304.126.1.0 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.53 43.0 3.88e-01 92.1% 77.8%
3470130 219.1.1.81 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › MINDY-3_4_CD 0.53 45.0 2.94e-01 98.4% 89.8%
4441043 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.53 38.0 2.94e-01 79.4% 60.6%
3387430 327.6.1.1 a+b two layers › Alpha-lytic protease prodomain-like › Fe-S cluster assembly (FSCA) domain-like › Fe-S cluster assembly (FSCA) domain-like › NifU 0.53 40.0 3.72e-01 82.5% 100.0%
3225917 2498.1.1.23 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M49 0.53 39.0 2.24e-01 81.0% 75.0%
3816946 3462.1.1.47 extended segments › V-type proton ATPase subunit G › V-type proton ATPase subunit G › V-type proton ATPase subunit G › PF27048 0.51 40.0 3.82e-01 93.7% 81.2%
3991094 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.51 38.0 3.64e-01 82.5% 94.7%
5061644 304.11.1.15 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 › Peptidase_S8 0.51 42.0 3.84e-01 100.0% 86.3%
4994641 304.19.1.1 a+b two layers › Alpha-beta plaits › eIF-2-alpha, C-terminal domain › eIF-2-alpha, C-terminal domain › EIF_2_alpha 0.51 40.0 3.66e-01 93.7% 91.6%
3829017 263.1.1.1 a+b three layers › SRF-like › SRF-like › SRF-like › SRF-TF 0.51 35.0 3.35e-01 71.4% 73.3%
5056226 304.126.1.0 a+b two layers › Alpha-beta plaits › ferredoxin-like domain in vacuolar ATP synthase subunit C › ferredoxin-like domain in vacuolar ATP synthase subunit C 0.51 40.0 3.88e-01 88.9% 87.1%