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LC644974.1__BCZ75953.1__X__00021

Bact-Vir

LC644974.1__BCZ75953.1__X__00021

Identity

Accession:
LC644974 ↗
Kingdom:
phage

Quality

76.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Komagataeibacter_phage_phiKM1

TaxID: 2860317

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 high residues 253-328
PDB
Domain cluster: representative
CATH (26)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zc2A00 1.10.10.630 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DnaD domain-like 0.73 63.0 6.37e-01 94.7% 96.0%
2kebA00 1.10.8.530 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › DNA polymerase alpha-primase, subunit B, N-terminal domain 0.71 60.0 5.99e-01 98.7% 94.9%
1wcrA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.68 32.0 2.87e-01 90.8% 32.0%
3whkA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 55.0 5.64e-01 92.1% 97.2%
5ubvA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.67 54.0 5.53e-01 93.4% 98.6%
3bosA02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.66 52.0 5.46e-01 89.5% 98.5%
1jqjD03 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.66 50.0 4.90e-01 89.5% 75.6%
4jzaA03 1.20.120.1720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.65 44.0 3.54e-01 71.1% 88.2%
2daiA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.64 40.0 3.89e-01 85.5% 56.6%
1n5uA02 1.10.246.10 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.64 45.0 4.31e-01 75.0% 78.9%
4nqfA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.63 43.0 3.50e-01 71.1% 71.7%
1c9bA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.61 46.0 4.26e-01 84.2% 62.9%
8etcb01 1.20.120.1190 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.60 41.0 3.30e-01 71.1% 71.2%
2x49A03 1.10.8.540 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › FHIPEP family, domain 3 0.58 50.0 4.83e-01 100.0% 93.3%
3lcnB00 1.10.340.40 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › Nuclear abundant poly(A) RNA-bind protein 2, N-terminal domain 0.57 45.0 4.18e-01 85.5% 99.0%
3t69A02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.57 42.0 3.13e-01 81.6% 38.5%
1jr8A00 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.57 41.0 3.73e-01 76.3% 56.2%
3solA00 1.20.58.1630 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS 0.56 39.0 3.73e-01 73.7% 100.0%
2n3eA01 1.10.274.70 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, N-terminal domain 0.54 39.0 3.46e-01 77.6% 100.0%
2bl2A00 1.20.120.610 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › lithium bound rotor ring of v- atpase 0.54 45.0 3.64e-01 96.1% 75.6%
2a0uB01 1.20.120.420 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › translation initiation factor eif-2b, domain 1 0.53 37.0 2.97e-01 73.7% 38.1%
1eq1A00 1.20.120.20 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Apolipoprotein 0.53 36.0 2.92e-01 72.4% 50.0%
2m3aA00 1.10.10.1900 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Knl-2 Myb-like DNA-binding domain-like 0.52 31.0 3.30e-01 92.1% 65.7%
2vixA03 1.20.1280.240 Mainly Alpha › Up-down Bundle › Monooxygenase › 0.51 37.0 3.30e-01 77.6% 96.5%
3nuwA02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.50 39.0 2.96e-01 86.8% 42.4%
7akwA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 38.0 2.83e-01 84.2% 59.5%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4527373 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.76 67.0 6.61e-01 100.0% 93.8%
3587918 4230.1.1.3 ↗ alpha arrays › DnaD domain › DnaD domain › DnaD domain › DnaB_2 0.75 67.0 6.21e-01 98.7% 78.9%
3627539 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.73 62.0 5.89e-01 94.7% 100.0%
3254417 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.72 60.0 6.06e-01 94.7% 93.3%
3580587 148.1.3.113 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_TRIP13_C 0.71 61.0 5.70e-01 97.4% 95.8%
5080893 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.71 61.0 6.07e-01 100.0% 92.5%
3521664 103.1.1.24 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › BIRC2-3-like_UBA 0.70 45.0 5.35e-01 85.5% 100.0%
4204294 148.1.3.21 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_4 0.70 57.0 5.79e-01 97.4% 93.3%
1556747 148.1.3.113 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_TRIP13_C 0.69 59.0 4.88e-01 98.7% 71.8%
4110274 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.68 58.0 5.80e-01 100.0% 93.8%
3887909 148.1.3.5 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › Pol_alpha_B_N 0.67 57.0 5.76e-01 97.4% 98.7%
3964153 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.65 54.0 5.49e-01 97.4% 97.3%
4246144 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 50.0 4.93e-01 88.2% 81.2%
52232 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.64 53.0 5.41e-01 94.7% 96.0%
4937736 103.7.1.1 ↗ alpha arrays › RuvA-C › Hypothetical protein MTH1615 › Hypothetical protein MTH1615 › dsDNA_bind 0.63 48.0 4.49e-01 88.2% 65.0%
4978149 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.63 46.0 4.31e-01 78.9% 68.4%
4929479 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.61 44.0 4.25e-01 77.6% 67.8%
4956322 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.61 40.0 2.94e-01 82.9% 23.7%
3480799 101.1.10.0 ↗ alpha arrays › HTH › HTH › Cyclin-like 0.61 46.0 3.86e-01 81.6% 88.1%
5060357 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.61 52.0 5.16e-01 96.1% 96.2%
3407099 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.61 46.0 4.87e-01 86.8% 93.8%
3239257 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.60 44.0 4.86e-01 84.2% 100.0%
4962267 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.60 44.0 4.18e-01 77.6% 67.8%
3731262 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.60 51.0 4.78e-01 97.4% 95.8%
4999627 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.58 44.0 3.75e-01 84.2% 69.6%
3017495 1128.1.1.2 ↗ alpha bundles › LYR protein › LYR protein › LYR protein › Complex1_LYR_2 0.58 44.0 3.86e-01 82.9% 62.6%
4942375 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.57 48.0 3.69e-01 97.4% 73.7%
5042605 101.1.10.3 ↗ alpha arrays › HTH › HTH › Cyclin-like › TFIIB 0.56 42.0 4.05e-01 85.5% 100.0%
3586489 2004.1.1.33 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C,RecQ_Zn_bind 0.53 44.0 2.95e-01 100.0% 23.8%
D2 high residues 340-401
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.59 45.0 3.77e-01 95.2% 47.3%
3fhnA05 1.10.10.2270 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Dsl1p vesicle tethering complex, Tip20p subunit, domain E 0.56 40.0 4.01e-01 80.6% 83.6%
1jmoA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.52 46.0 3.08e-01 96.8% 38.3%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5061328 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.65 47.0 4.55e-01 91.9% 68.6%
3899959 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.57 49.0 4.11e-01 100.0% 56.2%
3652773 5059.1.1.0 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter 0.52 45.0 3.09e-01 100.0% 69.4%
D3 medium residues 1-148
PDB
Domain cluster: rep: MK291442.1__AZV00258.1__pkon1_p29__00029__D1-112
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2w9zA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.50 30.0 3.21e-01 77.0% 65.4%
ECOD (2)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3589586 101.1.2.266 ↗ alpha arrays › HTH › HTH › winged helix domain › Phage_rep_org_N 0.63 45.0 4.86e-01 74.3% 87.2%
4080124 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.50 43.0 3.28e-01 95.3% 96.3%