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ON287373.1__URC22447.1__KAMAJI_00110__00004

Bact-Vir

ON287373.1__URC22447.1__KAMAJI_00110__00004

Identity

Accession:
ON287373 ↗
Kingdom:
phage

Quality

87.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Demerecviridae› Serratia_phage_vB_SmaM-Kamaji

TaxID: 2943833

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 medium residues 1-35
PDB
Domain cluster: representative
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gaxA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.84 74.0 4.23e-01 100.0% 38.8%
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.81 67.0 6.07e-01 97.1% 87.8%
4pofA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.80 67.0 5.99e-01 97.1% 88.0%
1kk1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.77 65.0 4.06e-01 100.0% 20.9%
4tpuA02 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.76 57.0 5.74e-01 88.6% 97.3%
2apoB00 2.20.28.40 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › H/ACA ribonucleoprotein complex, subunit Nop10 0.76 56.0 4.97e-01 91.4% 54.5%
6nw1A00 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.76 57.0 5.33e-01 85.7% 100.0%
4y97D00 1.10.3200.20 Mainly Alpha › Orthogonal Bundle › Hypothetical protein af0941 › DNA Polymerase alpha, zinc finger 0.73 56.0 3.62e-01 91.4% 23.6%
2gnrA01 6.10.30.10 Special › Helix non-globular › Lyase 2-enoyl-coa Hydratase; Chain A, domain 2 › 0.71 56.0 4.64e-01 94.3% 58.0%
1yuzA02 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.71 54.0 5.42e-01 94.3% 97.4%
3h99A02 2.20.28.20 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › Methionyl-tRNA synthetase, Zn-domain 0.70 52.0 5.24e-01 85.7% 94.3%
1yu0A02 2.80.20.10 Mainly Beta › Trefoil › Tail fiber receptor-binding protein › Tail fiber receptor-binding protein 0.67 49.0 3.43e-01 91.4% 42.5%
6hoyA02 2.20.28.200 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.67 50.0 4.62e-01 88.6% 87.8%
1n0uA03 3.90.1430.10 Alpha Beta › Alpha-Beta Complex › Yeast translation eEF2 (G' domain) › Yeast translation eEF2 (G' domain) 0.64 47.0 3.46e-01 91.4% 27.1%
3axsA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 54.0 3.17e-01 97.1% 12.7%
1ak2A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 46.0 2.96e-01 91.4% 18.6%
2yfoA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.63 50.0 3.71e-01 91.4% 45.8%
2xn2A03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.62 51.0 3.79e-01 94.3% 46.9%
1txqA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.62 46.0 3.81e-01 88.6% 93.2%
4ecnA02 2.60.40.3540 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4458 0.62 52.0 3.66e-01 100.0% 55.7%
6phxA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.61 48.0 3.60e-01 91.4% 46.3%
3zo9B03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.60 47.0 3.50e-01 91.4% 40.0%
1vziA01 2.20.28.100 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › Desulphoferrodoxin, N-terminal domain 0.59 46.0 4.55e-01 94.3% 94.7%
1dfxA00 2.60.40.730 Mainly Beta › Sandwich › Immunoglobulin-like › SOR catalytic domain 0.59 46.0 3.28e-01 94.3% 28.8%
4mbsA00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.54 38.0 2.36e-01 100.0% 16.5%
4e9kA00 2.60.120.1350 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF4465 0.54 41.0 2.65e-01 100.0% 21.7%
4n4fA02 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.53 38.0 3.76e-01 80.0% 100.0%
3doaA03 3.40.970.40 Alpha Beta › 3-Layer(aba) Sandwich › Ribonuclease HI; Chain A › fibrinogen binding protein from staphylococcus aureus domain like 0.51 39.0 3.78e-01 88.6% 72.1%
2levA00 4.10.430.10 Few Secondary Structures › Irregular › H-NS DNA Binding Protein › Histone-like protein H-NS, C-terminal domain 0.51 37.0 3.45e-01 97.1% 78.9%
ECOD (66)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4252855 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.86 66.0 6.93e-01 82.9% 96.7%
4940675 375.1.1.6 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L40e 0.86 71.0 6.84e-01 91.4% 87.5%
4927062 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.85 71.0 6.53e-01 91.4% 77.8%
2855894 375.1.1.48 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF35_N 0.85 66.0 6.82e-01 88.6% 96.9%
4418347 375.4.1.1 ↗ few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like › Nop10p 0.83 66.0 5.24e-01 91.4% 44.3%
4158088 375.1.1.218 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_Ribbon_1 0.82 72.0 6.58e-01 97.1% 88.9%
4028836 375.5.1.1 ↗ few secondary structure elements › Rubredoxin-like › NOB1 zinc finger-like › NOB1 zinc finger-like › NOB1_Zn_bind 0.82 66.0 5.40e-01 91.4% 52.3%
4087125 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.81 67.0 5.60e-01 94.3% 90.0%
3500548 375.5.1.1 ↗ few secondary structure elements › Rubredoxin-like › NOB1 zinc finger-like › NOB1 zinc finger-like › NOB1_Zn_bind 0.80 64.0 5.43e-01 91.4% 56.7%
4942509 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.80 66.0 4.88e-01 94.3% 60.0%
5047965 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.80 61.0 4.16e-01 94.3% 23.8%
4283080 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.78 63.0 4.42e-01 94.3% 53.0%
4056467 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.78 61.0 5.11e-01 85.7% 95.0%
4439164 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.78 61.0 3.62e-01 85.7% 22.4%
5036017 2006.1.3.2 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › Toprim 0.78 63.0 3.81e-01 94.3% 13.9%
5050748 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.78 66.0 4.76e-01 100.0% 48.0%
4541404 2008.1.1.0 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like 0.77 57.0 3.75e-01 77.1% 19.3%
5036185 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.77 57.0 4.93e-01 91.4% 50.0%
4948217 375.4.1.0 ↗ few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.77 61.0 5.92e-01 100.0% 82.5%
5071597 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.77 57.0 5.06e-01 91.4% 54.5%
5070701 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.76 57.0 5.11e-01 88.6% 56.6%
5028713 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.76 54.0 4.67e-01 85.7% 46.7%
5068448 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.76 60.0 4.17e-01 88.6% 27.0%
4241211 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.76 64.0 4.61e-01 100.0% 45.7%
4571246 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.76 64.0 4.71e-01 100.0% 62.1%
4648786 101.1.2.29 ↗ alpha arrays › HTH › HTH › winged helix domain › PTS_2-RNA 0.75 55.0 3.76e-01 91.4% 21.5%
3972613 375.4.1.0 ↗ few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.75 56.0 5.42e-01 82.9% 72.5%
4941232 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.74 59.0 4.17e-01 94.3% 53.9%
5030464 375.1.1.204 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PolC_DP2_central 0.74 59.0 4.38e-01 94.3% 62.1%
2507149 375.1.1.48 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF35_N 0.74 55.0 5.60e-01 88.6% 94.1%
3980811 375.1.1.60 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PriA_CRR 0.74 59.0 4.99e-01 88.6% 96.7%
4962354 375.1.1.48 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF35_N 0.74 61.0 6.11e-01 97.1% 100.0%
4011425 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.74 58.0 3.52e-01 91.4% 22.6%
4289796 375.1.1.60 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PriA_CRR 0.73 59.0 4.84e-01 88.6% 95.4%
5059159 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.73 56.0 3.98e-01 88.6% 27.4%
4943585 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 56.0 5.70e-01 100.0% 94.3%
3984750 375.1.1.295 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_11, DUF7828 0.72 54.0 3.79e-01 88.6% 25.6%
5071328 375.1.1.48 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF35_N 0.72 56.0 4.99e-01 94.3% 72.7%
3948249 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 59.0 3.50e-01 85.7% 22.4%
4274063 375.10.1.2 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha › zf-DPOE 0.71 55.0 3.88e-01 91.4% 28.3%
None — 0.71 59.0 3.52e-01 88.6% 23.2%
5034201 375.10.1.2 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha › zf-DPOE 0.71 54.0 3.77e-01 91.4% 26.2%
4163070 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.69 55.0 3.37e-01 100.0% 13.5%
4477670 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.69 56.0 3.40e-01 85.7% 23.7%
3476530 376.1.1.8 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.69 52.0 4.41e-01 88.6% 67.7%
4969647 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.69 49.0 3.69e-01 91.4% 28.2%
4621617 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 52.0 4.81e-01 88.6% 74.0%
3385436 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.66 50.0 3.07e-01 85.7% 23.7%
5055030 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.66 51.0 3.48e-01 88.6% 23.6%
4116298 375.10.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha 0.65 51.0 3.57e-01 97.1% 28.5%
3523487 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.65 51.0 4.83e-01 94.3% 100.0%
5036844 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.64 47.0 4.47e-01 85.7% 66.7%
2487011 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 46.0 3.79e-01 88.6% 43.6%
4995608 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.61 44.0 3.13e-01 88.6% 23.6%
4985268 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 44.0 3.13e-01 91.4% 22.1%
4070010 375.1.2.1 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Desulforedoxin › Desulfoferrod_N 0.60 47.0 4.59e-01 94.3% 90.0%
4958515 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.60 43.0 3.13e-01 97.1% 25.0%
3689410 109.4.1.1856 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_TBCD_2nd 0.59 49.0 2.90e-01 100.0% 11.5%
3735759 109.4.1.1856 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_TBCD_2nd 0.59 49.0 2.69e-01 100.0% 12.4%
5040991 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 42.0 2.84e-01 97.1% 18.9%
5001822 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 42.0 3.05e-01 97.1% 24.1%
5003882 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 42.0 3.14e-01 97.1% 28.0%
3974544 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.57 43.0 3.87e-01 88.6% 81.8%
3319527 2.1.1.42 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Rep_fac-A_C 0.57 40.0 2.70e-01 82.9% 18.9%
3385114 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.54 40.0 3.32e-01 88.6% 42.4%
3987431 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.52 41.0 2.36e-01 100.0% 17.4%