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OP434460.1__UYL88100.1__SEA_PYTHEAS_72__00072

Bact-Vir

OP434460.1__UYL88100.1__SEA_PYTHEAS_72__00072

Identity

Accession:
OP434460 ↗
Kingdom:
phage

Quality

85.9 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 8-111
PDB
CATH (18)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.78 51.0 6.12e-01 75.0% 100.0%
1khiA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.69 48.0 5.54e-01 76.0% 98.7%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.64 40.0 4.66e-01 71.2% 92.9%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.62 46.0 4.27e-01 76.0% 81.1%
1ixdA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.61 43.0 4.35e-01 73.1% 80.8%
4dovA00 2.30.30.490 Mainly Beta › Roll › SH3 type barrels. › Bromo adjacent homology (BAH) domain 0.61 47.0 4.14e-01 82.7% 89.2%
2lt1A00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.60 40.0 4.56e-01 76.0% 93.3%
2shpB03 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.55 41.0 3.00e-01 77.9% 59.7%
7bwcA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.55 39.0 2.74e-01 73.1% 41.8%
2lnjA00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.54 39.0 3.37e-01 76.0% 62.9%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 30.0 3.55e-01 74.0% 78.9%
5ig0A00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 37.0 3.42e-01 72.1% 80.2%
2retA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.52 34.0 3.70e-01 70.2% 81.0%
6ro0D00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 44.0 4.34e-01 89.4% 97.3%
1v2bB00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.52 39.0 3.45e-01 77.9% 64.2%
1tu1A00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.52 39.0 3.51e-01 78.8% 67.4%
4khbC00 2.30.29.210 Mainly Beta › Roll › PH-domain like › FACT complex subunit Spt16p/Cdc68p 0.50 39.0 3.95e-01 85.6% 87.7%
1dmlA00 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.50 37.0 2.75e-01 77.9% 87.3%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4997059 4.1.1.139 beta barrels › SH3 › SH3 › SH3 › IF5A-like_N 0.79 55.0 6.43e-01 76.0% 100.0%
3297966 4.25.1.2 beta barrels › SH3 › Auxin response factor dimerization domain and ancillary domain › Auxin response factor dimerization domain and ancillary domain › BRWD_AD 0.70 51.0 4.86e-01 75.0% 86.7%
3188394 4.8.1.22 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.67 52.0 5.01e-01 82.7% 89.2%
4013811 4.8.1.22 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DUF7025 0.66 47.0 5.04e-01 74.0% 100.0%
3253267 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.64 46.0 4.97e-01 76.0% 91.8%
3830813 4.1.1.20 beta barrels › SH3 › SH3 › SH3 › BAH 0.64 46.0 3.77e-01 75.0% 57.8%
3594413 4.8.1.0 beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.63 45.0 5.07e-01 74.0% 98.8%
3584109 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 44.0 3.94e-01 72.1% 74.3%
3185466 4.1.1.225 beta barrels › SH3 › SH3 › SH3 › DUF7025 0.63 51.0 4.10e-01 87.5% 98.5%
3631313 4.1.1.225 beta barrels › SH3 › SH3 › SH3 › DUF7025 0.61 50.0 4.08e-01 87.5% 98.4%
5012425 4.11.1.0 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.61 55.0 5.01e-01 100.0% 99.3%
3700517 5.1.2.33 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › BNR_3 0.61 43.0 3.09e-01 74.0% 45.9%
3645842 4.1.1.162 beta barrels › SH3 › SH3 › SH3 › DUF502 0.61 43.0 4.74e-01 74.0% 93.8%
3272197 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.61 48.0 4.87e-01 83.7% 85.7%
4517543 4.23.1.2 beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.61 44.0 4.17e-01 76.0% 84.8%
1112010 4.1.1.32 beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.60 40.0 4.56e-01 76.0% 93.3%
3793700 219.1.1.110 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C1, Peptidase_C1_2 0.60 45.0 3.91e-01 77.9% 94.4%
3615426 4.11.1.1 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.60 54.0 4.80e-01 100.0% 80.7%
3676628 4.1.1.162 beta barrels › SH3 › SH3 › SH3 › DUF502 0.59 44.0 4.19e-01 77.9% 69.2%
1157717 4.23.1.2 beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.59 44.0 4.06e-01 77.9% 83.8%
3829111 881.1.1.1 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › PsbP 0.59 43.0 3.44e-01 76.9% 60.5%
4033933 9.9.1.1 beta barrels › Lipocalins/Streptavidin › Hypothetical protein YwiB › Hypothetical protein YwiB › DUF1934 0.57 37.0 3.67e-01 73.1% 59.1%
3486144 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.57 42.0 3.00e-01 77.9% 62.9%
3951961 4.1.1.32 beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.56 39.0 4.05e-01 79.8% 78.9%
4983074 4.23.1.2 beta barrels › SH3 › Dom34/Pelota N-terminal domain-like › Dom34/Pelota N-terminal domain-like › PF26356 0.56 43.0 4.03e-01 82.7% 86.2%
3931744 2.1.1.141 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › WCOB 0.55 42.0 3.66e-01 78.8% 84.7%
3281481 222.1.1.34 a+b two layers › Thioesterase/thiol ester dehydrase-isomerase-like › Thioesterase/thiol ester dehydrase-isomerase › Thioesterase/thiol ester dehydrase-isomerase › AvrD 0.55 40.0 3.43e-01 76.0% 90.9%
4335575 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 44.0 2.57e-01 88.5% 55.7%
3583630 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.54 40.0 2.73e-01 78.8% 43.8%
3924927 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.53 39.0 2.90e-01 78.8% 53.3%
3779502 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.52 40.0 2.89e-01 80.8% 53.9%
5055337 881.1.1.0 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.51 39.0 3.38e-01 79.8% 70.6%
4029293 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.51 39.0 3.64e-01 79.8% 89.8%
3226923 2007.2.3.1 a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.51 37.0 2.61e-01 77.9% 46.4%
3702518 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 38.0 3.76e-01 78.8% 100.0%
3607605 2008.6.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Acetyl-CoA carboxylase AC4 and AC5 domains › Acetyl-CoA carboxylase AC4 and AC5 domains 0.50 35.0 2.76e-01 70.2% 75.8%
D2 high residues 188-238
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3syjA02 2.160.20.20 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.61 45.0 2.56e-01 80.4% 8.6%
1c9rA04 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.61 44.0 3.52e-01 78.4% 92.5%
5fmgG00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.60 48.0 3.34e-01 100.0% 77.6%
2knrA00 3.40.1530.20 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1805 › Protein of unknown function (DUF1491) 0.59 48.0 3.80e-01 96.1% 68.6%
4bouA00 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.59 39.0 2.86e-01 80.4% 24.8%
6ovpA00 3.30.1050.10 Alpha Beta › 2-Layer Sandwich › Nonspecific Lipid-transfer Protein; Chain A › SCP2 sterol-binding domain 0.55 42.0 3.36e-01 88.2% 44.9%
2jmkA00 3.30.420.600 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Thermoplasma acidophilum protein TA0956 0.55 39.0 3.19e-01 80.4% 67.3%
7k7yG02 1.20.1120.10 Mainly Alpha › Up-down Bundle › "Clostridium botulinum neurotoxin B, ""coiled-coil"" domain" › "Clostridium botulinum neurotoxin b, ""coiled-coil"" domain" 0.54 43.0 2.56e-01 88.2% 28.0%
5zliA01 3.10.20.70 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Glutamine synthetase, N-terminal domain 0.52 38.0 3.13e-01 82.4% 85.8%
4lniJ01 3.10.20.70 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Glutamine synthetase, N-terminal domain 0.52 37.0 3.01e-01 78.4% 86.5%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.51 43.0 3.19e-01 98.0% 61.0%
3u7zA00 2.170.130.30 Mainly Beta › Beta Complex › Ferric Hydroxamate Uptake Protein; Chain A, domain 1 › 0.50 36.0 2.95e-01 76.5% 93.8%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4027467 306.3.1.0 a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like 0.66 48.0 3.88e-01 80.4% 86.7%
3473882 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.62 43.0 3.58e-01 72.5% 100.0%
119224 3098.1.1.1 a+b two layers › Uncharacterized protein ATC0905 › Uncharacterized protein ATC0905 › Uncharacterized protein ATC0905 › DUF1491 0.59 48.0 3.80e-01 96.1% 68.6%
3245412 268.1.1.1 a+b two layers › Sterol carrier protein-like › Sterol carrier protein, SCP-related › Sterol carrier protein, SCP-related › SCP2 0.56 43.0 3.56e-01 92.2% 74.5%
3316143 4987.1.1.0 few secondary structure elements › Ribosomal protein L31p › Ribosomal protein L31p › Ribosomal protein L31p 0.55 34.0 3.24e-01 82.4% 51.7%
3971145 3071.1.1.1 a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › Phage_GPD 0.55 44.0 4.23e-01 94.1% 86.7%
3930907 207.1.1.0 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.53 38.0 2.54e-01 80.4% 19.2%
3463023 4987.1.1.0 few secondary structure elements › Ribosomal protein L31p › Ribosomal protein L31p › Ribosomal protein L31p 0.50 34.0 3.61e-01 88.2% 90.0%
D3 medium residues 132-187
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2cjsC01 3.30.60.120 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.65 41.0 4.62e-01 73.2% 94.7%
2qbyA03 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 0.59 34.0 2.90e-01 100.0% 34.4%
1zyiA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.53 41.0 3.28e-01 85.7% 99.1%
4jdmA02 6.10.250.2680 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.52 31.0 3.00e-01 76.8% 49.2%
2bh7A02 3.40.80.10 Alpha Beta › 3-Layer(aba) Sandwich › Lysozyme-like › Peptidoglycan recognition protein-like 0.52 44.0 3.25e-01 98.2% 88.2%
3cj1A02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.51 36.0 2.39e-01 76.8% 20.5%
3t91B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.51 39.0 2.74e-01 91.1% 39.3%
4lmoA00 1.10.132.70 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › 0.51 37.0 2.49e-01 80.4% 61.0%
2ob9A00 3.30.2220.20 Alpha Beta › 2-Layer Sandwich › rbstp2171 › Phage tail assembly chaperone gp13-like 0.50 39.0 3.22e-01 87.5% 78.5%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5065639 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 49.0 5.02e-01 75.0% 96.2%
4961820 377.1.1.0 few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.63 47.0 4.61e-01 80.4% 78.3%
4882574 375.1.1.35 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › HVO_2753_ZBP 0.63 45.0 4.54e-01 78.6% 87.9%
3581095 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 44.0 3.09e-01 82.1% 83.4%
4311880 304.11.1.4 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 › FAS_AT_central 0.57 41.0 3.45e-01 78.6% 81.9%
3463525 376.1.3.0 few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger 0.57 46.0 4.65e-01 100.0% 90.9%
4388283 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 0.56 40.0 3.77e-01 76.8% 100.0%
3254281 3241.1.1.1 alpha arrays › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › GPP34 0.56 41.0 2.67e-01 76.8% 38.0%
4961903 2498.1.1.29 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M78 0.55 40.0 3.08e-01 78.6% 95.0%
4002566 109.4.1.574 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › NOC3p 0.54 46.0 2.99e-01 98.2% 31.6%
5049996 4244.1.1.0 a/b three-layered sandwiches › EreA/ChaN-like › EreA/ChaN-like › EreA/ChaN-like 0.54 41.0 2.81e-01 83.9% 89.5%
4961836 2498.1.1.0 mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.54 40.0 3.05e-01 78.6% 95.0%
3700547 109.4.1.22 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N 0.53 47.0 2.67e-01 100.0% 16.3%
3473279 2003.1.5.102 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › DUF4471 0.53 40.0 2.61e-01 83.9% 60.9%
3284000 4107.1.1.2 alpha arrays › Jann2411-like › Jann2411-like › Jann2411-like › zf-CGNR 0.52 37.0 2.65e-01 75.0% 57.9%
3719352 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.51 41.0 2.61e-01 87.5% 41.4%
3233740 604.29.1.1 alpha bundles › Spectrin repeat-like › Trehalose-6-phosphate phosphatase N-terminal helical bundle › Trehalose-6-phosphate phosphatase N-terminal helical bundle › T6PP_N 0.51 39.0 3.19e-01 82.1% 82.9%
3798928 59.1.4.2 beta complex topology › triple barrel › triple barrel › TFIID subunits TAF1-TAF7 › DUF3591 0.50 37.0 2.21e-01 80.4% 10.8%