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SR-VP_4-6_scaffold_141_5680703_prodigal-single.1__X__X__00252

Bact-Vir

SR-VP_4-6_scaffold_141_5680703_prodigal-single.1__X__X__00252

Identity

Kingdom:
phage

Quality

85.4 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 14-92
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4a17U01 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.78 57.0 5.76e-01 78.5% 77.9%
3whjA00 6.10.140.1710 Special › Helix non-globular › Helix Hairpins › 0.73 51.0 4.55e-01 73.4% 65.8%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.69 51.0 4.98e-01 78.5% 100.0%
3bjoA00 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 0.67 43.0 3.96e-01 100.0% 50.5%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.67 49.0 3.98e-01 78.5% 64.5%
2lm9A00 1.20.58.970 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 47.0 4.39e-01 74.7% 83.3%
2yxhA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.65 48.0 4.38e-01 82.3% 59.3%
2l9bA00 1.25.40.630 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.64 45.0 4.30e-01 81.0% 63.7%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.64 48.0 4.28e-01 81.0% 100.0%
3n2oA03 1.20.58.930 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.63 48.0 4.52e-01 82.3% 81.2%
3lpzA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.62 43.0 2.86e-01 78.5% 18.5%
3x17A02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.62 52.0 3.27e-01 94.9% 99.3%
6mcjA00 1.10.2090.10 Mainly Alpha › Orthogonal Bundle › orange carotenoid protein, domain 2 › Orange carotenoid-binding protein, N-terminal domain 0.61 47.0 3.85e-01 82.3% 99.3%
2au5A00 1.20.120.590 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › EF2947-like 0.61 55.0 4.61e-01 97.5% 86.8%
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.60 42.0 4.30e-01 73.4% 96.2%
5azpB01 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.59 52.0 3.34e-01 97.5% 58.0%
3t69A02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.58 47.0 3.40e-01 93.7% 31.0%
4y9jA01 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.57 50.0 4.06e-01 96.2% 67.8%
6ks6q01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.57 48.0 3.44e-01 100.0% 82.4%
1iurA01 1.10.287.110 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain 0.56 39.0 4.30e-01 73.4% 90.5%
6q9jB02 1.20.1440.230 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › NADH-ubiquinone oxidoreductase 51kDa subunit, iron-sulphur binding domain 0.56 45.0 4.40e-01 91.1% 78.4%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.55 38.0 3.51e-01 73.4% 53.8%
1u9pA00 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.55 43.0 4.12e-01 87.3% 90.6%
2jnsA01 1.20.1270.220 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.55 39.0 3.91e-01 75.9% 72.8%
1e29A00 1.10.760.10 Mainly Alpha › Orthogonal Bundle › Cytochrome Bc1 Complex; Chain D, domain 2 › Cytochrome c-like domain 0.54 47.0 4.00e-01 100.0% 94.1%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 47.0 4.05e-01 100.0% 94.6%
2vwaA00 1.20.58.1330 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Plasmodium falciparum UIS3 membrane protein 0.54 45.0 4.20e-01 98.7% 73.7%
3t6gB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.53 46.0 3.93e-01 97.5% 76.9%
2xq9A02 1.20.58.390 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Neurotransmitter-gated ion-channel transmembrane domain 0.53 37.0 3.29e-01 73.4% 53.7%
4lqkA00 1.10.437.20 Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › dsDNA poxvirus 0.52 44.0 3.73e-01 93.7% 59.8%
4fm3A00 1.20.1270.390 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.51 39.0 3.69e-01 93.7% 68.4%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.51 44.0 4.43e-01 100.0% 97.6%
4mt4A00 1.20.1600.10 Mainly Alpha › Up-down Bundle › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) 0.50 43.0 2.73e-01 98.7% 60.8%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3595877 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.80 57.0 4.88e-01 74.7% 48.3%
3257366 133.1.1.1 ↗ alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › RhoGEF 0.79 59.0 4.13e-01 78.5% 45.1%
3654912 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.78 57.0 4.83e-01 78.5% 48.0%
3418963 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.78 56.0 5.64e-01 78.5% 75.0%
3332149 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.78 56.0 5.58e-01 74.7% 73.8%
4934026 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.77 57.0 6.16e-01 79.7% 93.8%
4832964 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.76 55.0 4.71e-01 78.5% 48.8%
3385721 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.75 64.0 4.86e-01 94.9% 56.2%
3736648 109.4.1.356 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Fungal_trans 0.74 54.0 3.33e-01 75.9% 15.7%
4944039 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.74 64.0 4.72e-01 94.9% 47.8%
4936868 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.74 55.0 5.54e-01 82.3% 77.5%
5057676 192.4.1.1 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › Ribosomal_L29 0.74 54.0 5.60e-01 82.3% 82.7%
3361533 568.1.1.17 ↗ few secondary structure elements › p8-MTCP1-related › p8-MTCP1-related › p8-MTCP1-related › DUF7803 0.73 57.0 4.77e-01 83.5% 57.0%
3242392 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.73 53.0 5.59e-01 77.2% 85.7%
4052317 3890.1.1.0 ↗ alpha bundles › Transmembrane Bax inhibitor motif (TMBIM) proteins › Transmembrane Bax inhibitor motif (TMBIM) proteins › Transmembrane Bax inhibitor motif (TMBIM) proteins 0.72 63.0 4.58e-01 96.2% 41.4%
3469715 3758.1.1.37 ↗ alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins › DUF7803 0.72 56.0 5.21e-01 84.8% 77.0%
5053013 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.71 61.0 4.65e-01 94.9% 52.4%
3697052 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.71 61.0 4.44e-01 94.9% 47.0%
4989797 5050.1.1.1 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.70 59.0 4.33e-01 94.9% 43.2%
4946108 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.70 58.0 4.42e-01 93.7% 51.8%
3219143 5050.1.1.5 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Folate_carrier 0.70 59.0 4.38e-01 94.9% 48.3%
3989726 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.69 58.0 4.43e-01 94.9% 53.8%
5054079 192.4.1.0 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.69 53.0 5.32e-01 82.3% 83.7%
4935614 3457.1.1.1 ↗ alpha bundles › GxGD membrane protease › GxGD membrane protease › GxGD membrane protease › Peptidase_A24 0.69 49.0 3.65e-01 74.7% 32.0%
5024781 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.68 56.0 4.45e-01 93.7% 56.0%
3968917 5050.1.1.60 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_3 0.68 57.0 4.29e-01 94.9% 48.3%
4189989 140.1.1.7 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › DALR_2 0.68 58.0 5.09e-01 94.9% 70.8%
3959233 3754.1.1.1 ↗ alpha bundles › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Bacterial cell wall synthesis membrane enzyme MraY-related › Glycos_transf_4 0.68 55.0 3.96e-01 89.9% 92.8%
3279460 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.68 56.0 4.22e-01 93.7% 49.3%
4964712 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.67 52.0 4.30e-01 86.1% 47.3%
4033447 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.67 55.0 4.28e-01 94.9% 52.1%
3582885 192.4.1.12 ↗ alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) › FmiP_Thoc5 0.66 50.0 4.39e-01 79.7% 60.9%
5013443 5050.1.1.0 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter 0.66 54.0 4.21e-01 92.4% 51.9%
3739959 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.66 55.0 4.24e-01 94.9% 52.6%
3917757 5050.1.1.5 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Folate_carrier 0.65 57.0 3.56e-01 100.0% 48.9%
3618523 604.6.1.0 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.65 49.0 4.71e-01 79.7% 74.4%
3786100 3184.1.1.1 ↗ alpha bundles › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › mRNA 3'-end-processing protein Rna15p hinge domain › CSTF2_hinge 0.65 45.0 4.44e-01 79.7% 68.2%
5072028 5050.1.1.9 ↗ alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › MFS_1 0.63 52.0 3.89e-01 93.7% 44.9%
3471712 604.8.1.0 ↗ alpha bundles › Spectrin repeat-like › Smac/diablo › Smac/diablo 0.62 44.0 3.82e-01 74.7% 76.8%
4565036 7516.1.1.2 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.62 54.0 3.74e-01 100.0% 39.3%
4048456 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.61 41.0 4.01e-01 73.4% 61.1%
3973770 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.60 47.0 4.46e-01 84.8% 82.1%
3987438 102.1.1.28 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › SAM domain-like › HHH_6 0.60 46.0 3.68e-01 81.0% 42.6%
4199922 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.60 42.0 3.62e-01 74.7% 50.8%
4147954 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.59 42.0 4.02e-01 73.4% 78.9%
3274427 622.1.1.1 ↗ alpha bundles › YvfG-like › HSC20 (HSCB), C-terminal oligomerisation domain › HSC20 (HSCB), C-terminal oligomerisation domain › HSCB_C 0.58 49.0 4.92e-01 96.2% 95.0%
3923908 133.1.1.1 ↗ alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › RhoGEF 0.57 42.0 3.00e-01 81.0% 54.5%
3639020 109.4.1.170 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › CLASP_N 0.55 46.0 2.82e-01 96.2% 19.3%
3245015 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.54 43.0 4.29e-01 88.6% 86.3%
4567001 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.54 47.0 4.45e-01 97.5% 84.2%
199236 545.1.2.1 ↗ alpha bundles › Gametocyte protein Pfg27-related › Gametocyte protein Pfg27-related › Sporozoite protein UIS3 soluble domain › PfUIS3 0.54 45.0 4.20e-01 98.7% 73.7%
4095580 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.53 44.0 4.19e-01 98.7% 78.9%
3224363 3831.1.1.0 ↗ alpha bundles › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 › Secreted protein of unknown function DUF1311 0.52 43.0 4.29e-01 94.9% 94.1%
3387796 604.34.1.1 ↗ alpha bundles › Spectrin repeat-like › Helical bundle domain in arginine decarboxylase › Helical bundle domain in arginine decarboxylase › Arg_decarb_HB 0.52 41.0 4.02e-01 100.0% 80.0%
3608731 3949.1.1.0 ↗ alpha arrays › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain › tRNA delta(2)-isopentenylpyrophosphate transferase helical insertion domain 0.51 39.0 4.10e-01 89.9% 90.0%
4277373 4994.1.1.1 ↗ alpha duplicates or obligate multimers › EF2458-like › EF2458-like › EF2458-like › DUF1507 0.51 41.0 3.92e-01 88.6% 80.6%
4959405 1075.1.1.28 ↗ alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › PF30402 0.50 40.0 2.88e-01 89.9% 63.8%
3389416 140.1.1.0 ↗ alpha bundles › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases › Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases 0.50 43.0 4.05e-01 100.0% 86.0%
3511230 632.2.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Bacterial immunoglobulin/albumin-binding domains › Bacterial immunoglobulin/albumin-binding domains 0.50 43.0 4.10e-01 100.0% 91.6%