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LSDeep1_scaffold_42_prodigal-single.1__X__X__00244

Bact-Vir

LSDeep1_scaffold_42_prodigal-single.1__X__X__00244

Identity

Kingdom:
phage

Quality

65.4 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 57-119
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wb6A00 3.90.1150.90 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › 0.73 54.0 4.37e-01 100.0% 43.0%
6z30A01 2.70.130.10 Mainly Beta › Distorted Sandwich › Cation-dependent Mannose-6-phosphate Receptor; Chain A › Mannose-6-phosphate receptor binding domain 0.64 45.0 3.47e-01 76.2% 34.6%
1ujrA01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.64 45.0 4.13e-01 76.2% 56.6%
6y2kA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.63 46.0 5.11e-01 92.1% 96.0%
1ir6A02 3.10.310.30 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.63 53.0 4.33e-01 100.0% 62.8%
1gc5A01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.63 53.0 3.37e-01 100.0% 44.2%
1x4rA01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.62 43.0 3.99e-01 77.8% 57.0%
3drwB01 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.61 52.0 3.35e-01 100.0% 48.6%
1kwgA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.61 45.0 4.93e-01 92.1% 98.0%
3h1tA01 3.90.1570.30 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.60 54.0 4.19e-01 100.0% 46.7%
7ct3A01 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.60 41.0 3.34e-01 85.7% 38.5%
2zvfA02 3.10.310.40 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.60 49.0 4.33e-01 100.0% 80.2%
4b62A00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.59 52.0 4.02e-01 100.0% 95.1%
2m1cA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.58 38.0 3.20e-01 84.1% 38.1%
2dk6A01 3.30.720.50 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › 0.57 41.0 3.68e-01 79.4% 52.1%
3s1sA01 3.90.1570.30 Alpha Beta › Alpha-Beta Complex › tt1808, chain A › 0.57 49.0 3.66e-01 100.0% 47.3%
3nx3A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.56 45.0 3.58e-01 100.0% 41.1%
3tixB01 2.40.290.20 Mainly Beta › Beta Barrel › Ku70; Chain: A; Domain 2 › 0.56 43.0 3.31e-01 84.1% 59.5%
5ysqB00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.56 49.0 3.20e-01 100.0% 44.6%
4a0fB02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.56 43.0 3.19e-01 100.0% 32.0%
2pb2B01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 46.0 3.59e-01 100.0% 42.3%
4ifaA01 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.55 45.0 3.09e-01 100.0% 45.2%
3bfmA01 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.55 42.0 3.11e-01 85.7% 89.4%
4ii2A02 3.40.50.12550 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Ubiquitin-activating enzyme E1, inactive adenylation domain, subdomain 2 0.55 42.0 3.01e-01 88.9% 82.9%
4p22A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.54 46.0 3.23e-01 100.0% 86.1%
5e50A01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.54 45.0 4.00e-01 100.0% 80.0%
1vkwA02 3.40.109.30 Alpha Beta › 3-Layer(aba) Sandwich › NADH Oxidase › putative nitroreductase (tm1586), domain 2 0.54 48.0 4.17e-01 100.0% 90.6%
3nm6B00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.53 40.0 2.82e-01 84.1% 91.7%
5b7gA00 3.40.50.1580 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nucleoside phosphorylase domain 0.53 40.0 2.77e-01 84.1% 92.4%
2giaB00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.53 38.0 2.95e-01 76.2% 40.4%
4o1sA00 2.170.16.10 Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain 0.52 38.0 2.76e-01 96.8% 28.2%
1shsA00 2.60.40.790 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 46.0 3.81e-01 100.0% 88.7%
4j4hA01 3.40.50.12150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.52 44.0 3.55e-01 100.0% 47.4%
2vg9A00 2.60.120.180 Mainly Beta › Sandwich › Jelly Rolls › Glycoside hydrolase family 11/12, catalytic domain 0.52 38.0 2.72e-01 82.5% 98.6%
3kxeA00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.52 37.0 3.27e-01 84.1% 51.1%
3pc3A03 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.51 41.0 3.29e-01 95.2% 72.9%
2xdoD00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 42.0 2.63e-01 93.7% 41.8%
2d0oB00 3.40.50.10150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › B12-dependent dehydatase associated subunit 0.50 43.0 3.70e-01 100.0% 70.4%
3kh5A02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.50 41.0 3.29e-01 95.2% 81.6%
4d0qA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 42.0 3.25e-01 100.0% 83.9%
2yziB00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.50 38.0 3.04e-01 84.1% 61.5%
1xkfB00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.50 41.0 3.37e-01 93.7% 83.7%
ECOD (71)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
146926 3066.1.1.0 0.73 54.0 4.65e-01 100.0% 51.6%
4955059 5104.1.1.0 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases 0.72 63.0 5.09e-01 100.0% 61.6%
5024282 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.72 63.0 5.08e-01 100.0% 64.8%
5011586 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.71 62.0 5.01e-01 100.0% 59.2%
4516996 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 0.67 49.0 4.94e-01 100.0% 76.9%
4964405 5104.1.1.8 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › PF27238 0.67 58.0 4.94e-01 100.0% 75.9%
5004885 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.67 58.0 3.51e-01 100.0% 37.3%
4037091 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.67 57.0 4.78e-01 100.0% 76.5%
4454798 5104.1.1.8 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › PF27238 0.67 58.0 4.97e-01 100.0% 73.1%
5074263 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.66 58.0 3.43e-01 100.0% 35.7%
4938576 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.66 57.0 3.51e-01 100.0% 35.0%
4257915 5104.1.1.4 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › UPF0160 0.65 58.0 4.53e-01 100.0% 70.4%
3911194 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.65 46.0 4.29e-01 77.8% 58.7%
4936965 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.65 56.0 3.44e-01 100.0% 38.9%
3703071 244.1.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.65 37.0 3.37e-01 77.8% 41.2%
2157033 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.65 55.0 3.30e-01 100.0% 36.1%
3914736 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.64 45.0 4.48e-01 77.8% 70.8%
907 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.64 45.0 3.75e-01 76.2% 42.7%
4957830 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.64 42.0 3.71e-01 82.5% 45.6%
4977810 3696.1.1.0 a+b two layers › DNA helicase UvsW N-terminal a+b domain-related › DNA helicase UvsW N-terminal a+b domain-related › DNA helicase UvsW N-terminal a+b domain-related 0.64 44.0 4.15e-01 71.4% 68.0%
4669938 5104.1.1.1 a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › DHHA1 0.63 55.0 4.62e-01 100.0% 72.7%
4994500 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.63 55.0 3.35e-01 100.0% 36.1%
3617714 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.63 43.0 4.15e-01 77.8% 61.3%
4971610 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 40.0 3.15e-01 82.5% 31.5%
3921414 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.63 43.0 4.06e-01 76.2% 58.2%
5031873 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.61 55.0 4.16e-01 100.0% 56.6%
4926919 2003.6.1.1 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › PfkB 0.61 52.0 3.34e-01 95.2% 52.0%
3254634 4357.1.1.1 beta barrels › WWE domain › WWE domain › WWE domain › WWE 0.60 43.0 4.11e-01 77.8% 64.0%
4932253 2008.1.1.100 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N_2 0.60 54.0 4.12e-01 100.0% 81.4%
3470449 4357.1.1.0 beta barrels › WWE domain › WWE domain › WWE domain 0.60 42.0 3.95e-01 76.2% 58.7%
4046575 286.1.1.2 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › PhzC-PhzF 0.59 50.0 4.20e-01 98.4% 85.2%
3289024 3097.1.1.1 a+b two layers › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosom_S30AE_C 0.59 45.0 4.00e-01 95.2% 55.8%
5024596 2008.1.1.15 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N 0.58 52.0 3.82e-01 100.0% 44.8%
3635444 2008.1.1.144 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PF27653 0.58 51.0 3.38e-01 100.0% 50.7%
3637753 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 52.0 3.52e-01 100.0% 48.7%
3638371 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.58 52.0 3.47e-01 100.0% 46.0%
4051669 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.58 48.0 4.24e-01 93.7% 78.9%
3200218 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 50.0 3.48e-01 100.0% 38.6%
3208220 2008.1.1.0 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.57 50.0 3.42e-01 100.0% 37.8%
4055099 7502.1.1.0 a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.57 48.0 4.47e-01 93.7% 91.3%
4987108 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.57 47.0 2.97e-01 100.0% 34.1%
4930870 2007.1.1.21 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › PylD_N 0.57 46.0 3.80e-01 100.0% 48.3%
3957462 2007.1.1.0 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.56 48.0 3.21e-01 100.0% 45.8%
2617913 2007.1.1.21 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › PylD_N 0.56 46.0 3.74e-01 98.4% 47.5%
5033617 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 39.0 3.07e-01 82.5% 36.8%
4940709 2003.6.1.4 a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › ADP_PFK_GK 0.55 46.0 2.93e-01 100.0% 34.6%
5013279 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.55 47.0 4.52e-01 100.0% 90.7%
4944138 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.55 39.0 3.38e-01 77.8% 52.4%
4927590 3012.1.1.0 a+b two layers › Cof C2 cap domain › Cof C2 cap domain › Cof C2 cap domain 0.54 47.0 4.56e-01 100.0% 94.3%
4566218 286.1.1.1 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase 0.54 46.0 3.79e-01 100.0% 85.6%
4174422 286.1.1.1 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase 0.54 48.0 3.75e-01 98.4% 49.2%
1447896 304.103.1.5 a+b two layers › Alpha-beta plaits › FMN-dependent nitroreductase-like › FMN-dependent nitroreductase-like › TM1586_NiRdase 0.54 48.0 4.20e-01 100.0% 92.6%
4998998 2007.1.1.21 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › PylD_N 0.54 42.0 3.51e-01 95.2% 46.7%
4965192 223.2.1.63 a+b three layers › Profilin-like › profilin-like › profilin-like › DUF7522 0.54 37.0 3.08e-01 82.5% 40.0%
5016197 282.1.1.1 a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.53 45.0 3.81e-01 96.8% 85.5%
4331745 286.1.1.1 a+b complex topology › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › Diaminopimelate epimerase-like › DAP_epimerase 0.52 45.0 3.54e-01 100.0% 69.7%
4042520 2008.1.1.15 a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › HSDR_N 0.52 45.0 3.13e-01 100.0% 36.4%
3223489 223.2.1.7 a+b three layers › Profilin-like › profilin-like › profilin-like › SRP-alpha_N 0.52 38.0 3.04e-01 77.8% 45.4%
5071633 2004.1.1.146 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase 0.52 37.0 2.60e-01 77.8% 63.4%
3712990 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.52 32.0 3.16e-01 95.2% 57.1%
1946130 11.8.1.8 beta sandwiches › Immunoglobulin-like beta-sandwich › Osmotin-like › Osmotin-like › Nakanori 0.52 40.0 2.93e-01 88.9% 61.4%
3531324 207.1.1.22 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_6 0.52 43.0 2.40e-01 98.4% 10.2%
3722079 2003.1.2.15 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.51 41.0 2.59e-01 92.1% 52.1%
3189869 2007.1.1.32 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › HET 0.51 45.0 3.14e-01 100.0% 45.7%
5079019 2006.1.1.11 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase_3 0.51 44.0 3.04e-01 100.0% 33.5%
4105274 2011.2.1.1 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PNP_UDP_1 0.51 39.0 2.69e-01 84.1% 91.5%
3694093 2007.1.1.32 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › HET 0.51 44.0 3.22e-01 100.0% 55.1%
3726585 7512.1.1.58 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › HET 0.50 44.0 3.11e-01 100.0% 60.0%
3696994 7512.1.1.58 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › HET 0.50 44.0 3.20e-01 100.0% 61.7%
3255286 244.1.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.50 41.0 3.09e-01 92.1% 49.4%
3956394 2011.2.1.1 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PNP_UDP_1 0.50 38.0 2.60e-01 84.1% 91.8%