Back to structures

MW584201.1__QSM04533.1__PROPHIGD08-3_10__00010

Bact-Vir

MW584201.1__QSM04533.1__PROPHIGD08-3_10__00010

Identity

Accession:
MW584201 ↗
Kingdom:
phage

Quality

86.3 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 medium residues 1-41
PDB
Domain cluster: representative
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2i2xB01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.87 71.0 5.32e-01 92.7% 42.0%
3ajmB02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.86 72.0 4.93e-01 100.0% 28.6%
1vf7A03 1.10.287.470 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.85 74.0 6.58e-01 100.0% 75.0%
1lrzA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 74.0 6.45e-01 100.0% 82.3%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.83 70.0 5.81e-01 100.0% 55.3%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.82 67.0 4.88e-01 90.2% 42.7%
3behB01 1.20.120.540 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Voltage-gated potassium channels 0.82 73.0 5.20e-01 100.0% 35.9%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.82 72.0 6.30e-01 100.0% 68.9%
4h63K00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.80 68.0 5.24e-01 100.0% 44.9%
1u1jA01 3.20.20.210 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › 0.79 68.0 3.91e-01 100.0% 87.3%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.79 65.0 5.53e-01 100.0% 56.8%
4cy8A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.78 63.0 3.95e-01 100.0% 17.8%
2jdiG01 1.10.287.80 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain 0.78 66.0 5.92e-01 100.0% 95.1%
3gi8C00 1.20.1740.10 Mainly Alpha › Up-down Bundle › Amino acid/polyamine transporter I › Amino acid/polyamine transporter I 0.78 68.0 3.83e-01 100.0% 9.4%
1z72A00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.78 67.0 4.22e-01 100.0% 19.0%
1x4tA01 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.77 65.0 5.92e-01 100.0% 74.1%
2rd3D00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.77 70.0 4.32e-01 100.0% 38.5%
1ailA00 1.10.287.10 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › S15/NS1, RNA-binding 0.77 60.0 5.14e-01 90.2% 54.3%
1v4aA01 1.10.4050.10 Mainly Alpha › Orthogonal Bundle › Nucleotidyltransferase substrate binding subunit/domain fold › Glutamine synthase adenylyltransferase GlnE 0.75 64.0 4.73e-01 97.6% 36.7%
1np7A02 1.25.40.80 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.75 61.0 4.46e-01 100.0% 32.8%
1lfkA00 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.75 66.0 3.80e-01 100.0% 11.5%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.72 65.0 4.69e-01 100.0% 46.4%
3ip3A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.71 57.0 3.60e-01 87.8% 83.7%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.71 58.0 4.74e-01 92.7% 69.2%
2kz6A01 6.10.140.1310 Special › Helix non-globular › Helix Hairpins › 0.69 57.0 4.69e-01 97.6% 64.2%
2l37A00 6.10.250.890 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.68 53.0 5.29e-01 95.1% 86.0%
6fhpD00 1.10.390.10 Mainly Alpha › Orthogonal Bundle › Neutral Protease; domain 2 › Neutral Protease Domain 2 0.67 47.0 4.21e-01 80.5% 51.6%
2cr7A01 1.20.1160.11 Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) › Paired amphipathic helix 0.66 47.0 4.20e-01 78.0% 52.4%
2fe1A00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.63 52.0 3.70e-01 97.6% 50.8%
2b9sA02 1.10.10.41 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Yeast DNA topoisomerase - domain 1 0.60 53.0 4.14e-01 100.0% 100.0%
3hugD00 1.10.10.1320 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Anti-sigma factor, zinc-finger domain 0.57 40.0 3.51e-01 70.7% 45.2%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3408304 109.4.1.1303 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C 0.92 83.0 4.49e-01 100.0% 6.8%
3381499 314.1.1.1 a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2 0.90 82.0 4.57e-01 100.0% 9.5%
3758389 109.4.1.1303 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C 0.90 79.0 4.34e-01 100.0% 7.1%
3279558 192.31.1.5 alpha bundles › Long alpha-hairpin › CP12 › CP12 › DUF4254 0.90 79.0 5.66e-01 100.0% 36.4%
54287 633.10.1.0 alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.90 79.0 5.62e-01 100.0% 34.8%
3902786 604.12.1.1 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.88 78.0 6.05e-01 100.0% 47.7%
3841460 109.4.1.1316 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Suf, HAT_PRP39_N, HAT_PRP39_C 0.88 77.0 4.23e-01 100.0% 7.6%
3899442 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.87 76.0 5.04e-01 100.0% 25.6%
3428852 3755.4.1.0 alpha bundles › YscO-like › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain › Phosphatidylinositol 3-kinase regulatory subunit inter-SH2 domain 0.87 77.0 5.31e-01 100.0% 30.4%
5053090 605.1.1.1 alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase › HisKA 0.87 78.0 6.82e-01 100.0% 70.0%
3790743 109.4.1.1303 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C 0.85 72.0 4.00e-01 100.0% 7.4%
3585180 109.4.1.1316 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Suf, HAT_PRP39_N, HAT_PRP39_C 0.85 72.0 3.95e-01 100.0% 6.5%
3262601 6155.1.1.2 alpha duplicates or obligate multimers › TOG superfamily › SWEET transporter › SWEET transporter › PQ-loop 0.85 73.0 5.72e-01 97.6% 48.2%
4485576 1.1.17.4 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Peptidase_S64 0.84 77.0 4.50e-01 100.0% 14.1%
3212065 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.84 73.0 5.05e-01 100.0% 30.4%
2722164 4275.1.1.6 alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Tube 0.82 70.0 4.50e-01 100.0% 21.0%
4936976 633.10.1.2 alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like › Bbp7-like 0.81 67.0 4.93e-01 100.0% 36.2%
4528712 109.4.1.3083 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF29810 0.80 68.0 4.14e-01 100.0% 15.6%
3546135 10.12.1.108 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › POPDC1-3 0.80 69.0 5.70e-01 100.0% 60.0%
3839762 1008.1.1.0 alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain 0.79 66.0 5.37e-01 100.0% 48.2%
4350232 141.1.1.3 alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.78 64.0 3.89e-01 100.0% 15.9%
3260418 5043.1.1.0 extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.77 66.0 5.63e-01 95.1% 63.1%
4106626 2002.1.1.154 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Meth_synt_1 0.77 64.0 3.74e-01 100.0% 88.1%
3286501 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.75 59.0 4.15e-01 92.7% 26.2%
4979920 2007.1.14.7 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Chelatase-like › HGD-D 0.72 55.0 3.34e-01 82.9% 22.9%
3711095 3075.1.1.0 a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.71 62.0 5.15e-01 100.0% 80.0%
4975294 601.28.1.0 alpha bundles › Four-helical up-and-down bundle › VPS28 C-terminal domain-like › VPS28 C-terminal domain-like 0.68 61.0 4.66e-01 100.0% 45.6%
D2 medium residues 48-89
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ch5B02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.68 57.0 3.73e-01 100.0% 65.0%
2v0uA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.65 52.0 3.68e-01 92.9% 90.4%
3zduA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.61 47.0 3.04e-01 97.6% 17.4%
3vwaA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.61 48.0 3.43e-01 92.9% 35.0%
1kfiA04 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.60 46.0 3.53e-01 100.0% 94.4%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.59 43.0 3.31e-01 95.2% 32.1%
1wgrA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.58 40.0 3.37e-01 97.6% 39.0%
4ht4A00 3.30.930.30 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › 0.58 51.0 3.35e-01 100.0% 51.5%
4azsA03 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.57 44.0 3.09e-01 85.7% 58.5%
5xbfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 39.0 3.10e-01 90.5% 36.8%
1jr7A00 3.60.130.10 Alpha Beta › 4-Layer Sandwich › Double-stranded beta-helix › Clavaminate synthase-like 0.55 45.0 2.75e-01 95.2% 44.4%
1ccwB02 3.90.970.10 Alpha Beta › Alpha-Beta Complex › Glutamate mutase, C-terminal domain › 0.55 46.0 4.07e-01 100.0% 63.6%
1jx4A04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.54 41.0 3.41e-01 100.0% 49.0%
3ce2A02 1.10.287.830 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › putative peptidase helix hairpin domain like 0.53 42.0 4.08e-01 85.7% 100.0%
3ihlB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 42.0 2.73e-01 95.2% 56.3%
1afwB01 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 42.0 2.73e-01 95.2% 90.6%
3in6A02 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.50 42.0 3.13e-01 97.6% 78.6%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2674054 2002.1.1.8 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Cellulase 0.68 53.0 3.14e-01 88.1% 28.0%
3594393 331.4.1.0 a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.64 53.0 4.36e-01 95.2% 51.2%
3517822 7523.1.1.0 a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.62 49.0 3.69e-01 92.9% 38.3%
5000883 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.61 39.0 3.76e-01 100.0% 52.0%
3335794 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 44.0 2.81e-01 97.6% 15.7%
3655226 101.1.10.3 alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.58 46.0 3.25e-01 90.5% 29.6%
4558649 3105.1.1.2 a+b three layers › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › thylakoid acid phosphatase domain-related › DUF5130 0.57 47.0 3.32e-01 92.9% 36.2%
3496221 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 48.0 4.28e-01 95.2% 80.0%
3415237 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 49.0 3.17e-01 100.0% 34.4%
4147916 10.12.1.41 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CsiD 0.56 46.0 2.79e-01 92.9% 75.2%
3513469 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.56 45.0 3.15e-01 92.9% 55.9%
3959053 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.55 46.0 3.07e-01 95.2% 37.3%
3603146 2008.1.1.95 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DpnII 0.55 41.0 2.57e-01 90.5% 16.5%
4308473 10.12.1.41 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › CsiD 0.54 45.0 2.73e-01 95.2% 41.8%
4932084 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.54 35.0 3.40e-01 100.0% 54.0%
3977412 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.54 35.0 3.44e-01 97.6% 53.1%
4947839 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.54 45.0 3.32e-01 100.0% 95.2%
3924546 214.1.1.0 a+b two layers › SH2 › SH2 › SH2 0.52 39.0 2.97e-01 95.2% 45.4%
5038748 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.51 43.0 3.19e-01 100.0% 55.0%
4946969 4076.3.1.0 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.51 34.0 3.29e-01 97.6% 50.0%
5028408 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.51 34.0 3.28e-01 92.9% 52.0%
4946282 2003.1.5.12 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › N6_N4_Mtase 0.50 42.0 2.60e-01 95.2% 76.9%
4956746 4076.3.1.5 a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain › Gins51_C 0.50 33.0 3.24e-01 97.6% 50.0%