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LacPavin_0818_WC40_scaffold_75050_prodigal-single.1__X__X__00131

Bact-Vir

LacPavin_0818_WC40_scaffold_75050_prodigal-single.1__X__X__00131

Identity

Kingdom:
phage

Quality

88.5 mean pLDDT

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 73-154
PDB
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qexA02 2.60.120.640 Mainly Beta › Sandwich › Jelly Rolls › gp9 0.85 80.0 7.30e-01 100.0% 85.4%
6o38A04 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.81 69.0 6.73e-01 100.0% 83.1%
6o38A03 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.74 62.0 6.18e-01 95.1% 89.2%
4dnyA00 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.73 68.0 6.12e-01 100.0% 75.2%
1sppB00 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.63 53.0 4.88e-01 97.6% 92.0%
3am2A02 2.60.120.1050 Mainly Beta › Sandwich › Jelly Rolls › 0.61 50.0 4.50e-01 92.7% 92.3%
1sfpA00 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.59 50.0 4.59e-01 97.6% 91.0%
2nncA00 2.60.40.2470 Mainly Beta › Sandwich › Immunoglobulin-like › SoxY domain 0.57 41.0 3.76e-01 84.1% 57.3%
3hnrA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 47.0 3.68e-01 95.1% 60.6%
3axsA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 49.0 3.32e-01 100.0% 53.1%
2eabB03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.55 47.0 4.11e-01 95.1% 98.4%
2g9zB01 2.60.120.320 Mainly Beta › Sandwich › Jelly Rolls › Thiamin pyrophosphokinase, thiamin-binding domain 0.52 43.0 3.89e-01 97.6% 71.5%
3wl5A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.50 41.0 2.81e-01 92.7% 56.2%
3ewaA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 44.0 3.18e-01 100.0% 49.4%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
184462 520.1.1.1 beta sandwiches › gp9 N-terminal domain-like › gp9 N-terminal domain-related › gp9 N-terminal domain-related › T4_gp9_10 0.85 80.0 6.12e-01 100.0% 52.4%
3289663 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.67 59.0 4.38e-01 100.0% 59.3%
4510460 10.4.1.1 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.62 53.0 4.80e-01 97.6% 89.6%
3485798 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 53.0 4.42e-01 98.8% 88.0%
3222002 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.61 49.0 4.32e-01 90.2% 77.6%
3022615 3156.3.1.0 beta sandwiches › Cupredoxin-like › Surface antigen 1 (SAG1)-related-sequence (SRS) family › Surface antigen 1 (SAG1)-related-sequence (SRS) family 0.60 49.0 3.90e-01 92.7% 77.8%
3507371 10.4.1.1 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.60 49.0 4.39e-01 92.7% 88.3%
3233124 10.4.1.0 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.59 48.0 4.31e-01 91.5% 83.3%
3484290 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 52.0 4.26e-01 100.0% 87.7%
3922295 10.4.1.0 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain 0.57 47.0 4.50e-01 97.6% 78.0%
3837944 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 44.0 3.95e-01 84.1% 87.0%
5061359 2003.1.5.19 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM 0.55 47.0 3.20e-01 100.0% 50.6%
4927510 3105.1.1.1 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › TPM_phosphatase 0.53 42.0 3.56e-01 93.9% 99.4%
D2 medium residues 1-62
PDB
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.72 54.0 5.71e-01 79.0% 90.9%
1yu0A01 2.10.10.30 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.69 53.0 5.74e-01 90.3% 100.0%
1ob8A00 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.64 48.0 4.04e-01 85.5% 91.6%
1h9oA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.60 44.0 3.74e-01 80.6% 60.2%
2rtsA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.60 45.0 4.33e-01 82.3% 94.5%
1wquA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 47.0 3.85e-01 87.1% 48.2%
1rwiA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.57 48.0 3.27e-01 95.2% 32.4%
1rpyB00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.57 41.0 3.73e-01 77.4% 66.3%
3ho6B00 3.40.50.11050 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › MARTX cysteine protease (CPD) domain 0.57 44.0 3.12e-01 91.9% 55.3%
1a0rB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.56 46.0 2.96e-01 93.5% 25.4%
1milA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.56 43.0 3.70e-01 85.5% 53.8%
2ci8A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.55 43.0 4.53e-01 87.1% 94.6%
6innA04 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.54 41.0 3.35e-01 85.5% 83.7%
1tk7A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.54 28.0 3.39e-01 88.7% 81.1%
3u4yA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 43.0 2.82e-01 95.2% 29.2%
4paaA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.53 39.0 2.94e-01 82.3% 68.8%
8eg0B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 43.0 2.81e-01 96.8% 35.4%
1pj5A02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.52 39.0 2.90e-01 83.9% 66.3%
1ywkC00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 37.0 2.59e-01 80.6% 31.2%
6p8uA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.52 39.0 3.16e-01 88.7% 79.2%
3c7xA00 2.110.10.10 Mainly Beta › 4 Propeller › Hemopexin › Hemopexin-like domain 0.52 41.0 2.93e-01 88.7% 61.7%
1e88A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.52 32.0 3.47e-01 88.7% 90.5%
4oj5B01 3.30.2020.50 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › 0.51 39.0 3.67e-01 90.3% 96.3%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3989853 77.1.1.13 beta meanders › open-sided beta-meander › Outer surface protein › Outer surface protein › CFSR 0.79 60.0 3.68e-01 79.0% 35.6%
3989854 3761.1.1.4 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › CFSR 0.77 60.0 5.35e-01 82.3% 85.9%
1281772 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.76 55.0 5.84e-01 75.8% 88.9%
3528795 3761.1.1.0 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.76 53.0 6.01e-01 80.6% 100.0%
3917719 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.75 51.0 5.88e-01 71.0% 100.0%
1505155 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.72 54.0 5.66e-01 79.0% 89.3%
3921177 3761.1.1.0 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.71 50.0 5.27e-01 80.6% 83.6%
1107990 3761.1.1.1 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.70 53.0 5.73e-01 88.7% 100.0%
5002640 3761.1.1.1 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.69 51.0 5.63e-01 80.6% 98.0%
3623217 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.68 51.0 5.63e-01 90.3% 100.0%
4994059 2492.1.1.2 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.67 52.0 4.11e-01 87.1% 84.4%
5028250 5090.1.1.0 beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.67 45.0 3.84e-01 71.0% 64.8%
4177188 3312.1.1.0 a+b two layers › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease 0.65 47.0 4.45e-01 77.4% 72.0%
3501098 4126.1.1.1 a/b three-layered sandwiches › beta-carbonic anhydrase-like › beta-carbonic anhydrase › beta-carbonic anhydrase › Pro_CA 0.65 52.0 3.49e-01 88.7% 73.7%
4980041 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 33.0 3.82e-01 71.0% 64.4%
3396514 386.1.1.259 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › PF29169 0.64 34.0 3.87e-01 74.2% 68.9%
4999472 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.63 48.0 3.47e-01 83.9% 82.1%
5010105 2008.1.1.3 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › Hjc 0.63 48.0 4.01e-01 88.7% 95.2%
4928895 79.1.1.0 beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.63 48.0 3.21e-01 85.5% 22.8%
3890372 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.61 49.0 4.06e-01 87.1% 53.6%
2495545 207.2.1.22 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Beta_helix 0.61 49.0 2.90e-01 87.1% 13.2%
3995595 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.60 45.0 3.60e-01 83.9% 48.1%
3483784 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.59 47.0 3.98e-01 87.1% 55.2%
3477642 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.58 44.0 3.63e-01 83.9% 50.0%
3647333 5.1.10.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.58 37.0 3.19e-01 93.5% 40.0%
3958560 4279.1.1.1 a+b three layers › DisA nucleotide-binding domain › DisA nucleotide-binding domain › DisA nucleotide-binding domain › DAC 0.58 45.0 4.10e-01 85.5% 83.5%
3518947 214.1.1.10 a+b two layers › SH2 › SH2 › SH2 › DUF7145 0.56 44.0 3.61e-01 87.1% 46.7%
3961261 5.1.4.471 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › NHL 0.56 46.0 3.25e-01 93.5% 53.2%
3924117 5.1.4.237 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR36-Utp21_2nd 0.56 46.0 3.00e-01 98.4% 28.9%
3606256 5.1.4.237 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR36-Utp21_2nd 0.56 48.0 2.99e-01 98.4% 24.6%
1290001 5.1.3.15 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Glu_cyclase_2 0.56 45.0 3.14e-01 91.9% 56.0%
3419181 5.1.3.144 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › b-prop_At3g26010-like 0.56 43.0 2.83e-01 85.5% 32.2%
4088743 1.1.9.0 beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.56 41.0 4.16e-01 79.0% 91.7%
3467235 207.1.1.171 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_RPS2, LRR_R13L1-DRL21 0.55 41.0 2.61e-01 82.3% 31.5%
3330204 5.1.4.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Glu_cyclase_2 0.55 45.0 2.97e-01 95.2% 45.2%
3953047 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.55 45.0 2.94e-01 93.5% 39.4%
3927767 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.55 44.0 2.81e-01 96.8% 35.8%
5018131 12.5.1.0 beta sandwiches › Glycosyl hydrolase domain-like › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related › ZU5/Nup98-C/GAIN-B autoproteolytic domain-related 0.55 38.0 3.02e-01 75.8% 86.2%
None 0.55 44.0 2.81e-01 98.4% 34.4%
3203494 5.1.4.250 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › DUF2415 0.54 45.0 2.82e-01 98.4% 25.5%
3258610 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.54 38.0 3.46e-01 72.6% 65.0%
3736958 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 44.0 2.89e-01 96.8% 41.8%
3957008 5.1.3.7 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › NHL 0.53 44.0 3.31e-01 93.5% 68.2%
3678544 207.1.1.103 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_R13L1-DRL21 0.52 40.0 2.53e-01 87.1% 18.4%
3734383 5.1.11.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 9-bladed 0.51 42.0 2.71e-01 100.0% 41.1%
3717796 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.50 40.0 2.90e-01 100.0% 74.6%