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AJ972879.2__CCE26293.1__X__00271

Bact-Vir

AJ972879.2__CCE26293.1__X__00271

Identity

Accession:
AJ972879 ↗
Kingdom:
phage

Quality

88.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Yersinia_phage_phiR1-37

TaxID: 331278

Cluster

View cluster (13 members)

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 8-134
PDB
Domain cluster: rep: LC680885.1__BDE75676.1__X__00138__D6-124
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x49A03 1.10.8.540 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › FHIPEP family, domain 3 0.67 36.0 4.15e-01 75.6% 72.2%
3ce2A03 1.10.1370.20 Mainly Alpha › Orthogonal Bundle › Neurolysin; domain 3 › Oligoendopeptidase f, C-terminal domain 0.67 45.0 3.22e-01 74.0% 23.8%
3c18A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.55 35.0 3.65e-01 74.0% 68.7%
5l3wA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.52 32.0 3.78e-01 90.6% 94.0%
4i98C01 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 0.51 22.0 2.84e-01 89.0% 66.7%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4969796 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.66 37.0 4.12e-01 71.7% 69.0%
4943050 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.65 46.0 3.47e-01 87.4% 30.3%
5010190 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.65 45.0 3.83e-01 85.8% 43.9%
4961827 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.65 46.0 3.65e-01 88.2% 36.5%
5080625 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.64 40.0 4.23e-01 77.2% 69.6%
3644314 2498.1.1.39 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › SprT-like 0.62 40.0 4.00e-01 70.9% 61.5%
5043156 316.1.1.2 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTP_transf_2 0.60 35.0 3.85e-01 77.2% 69.5%
5049315 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.60 51.0 3.24e-01 90.6% 56.1%
4959203 2498.1.1.160 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_MA_2 0.58 48.0 3.93e-01 89.0% 51.5%
4031693 2498.1.1.7 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3,Peptidase_M3_N 0.58 49.0 3.12e-01 89.8% 54.6%
4315681 2498.1.1.7 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3,Peptidase_M3_N 0.58 48.0 3.07e-01 89.0% 55.3%
4940509 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.58 35.0 3.91e-01 72.4% 77.0%
3837985 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.57 48.0 3.14e-01 89.8% 53.6%
5044803 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.57 47.0 3.06e-01 89.0% 57.1%
5041303 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.57 47.0 3.05e-01 89.0% 56.7%
3386159 2498.1.1.7 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3,Peptidase_M3_N 0.57 47.0 3.07e-01 89.8% 56.1%
4593684 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.56 47.0 3.04e-01 89.8% 53.7%
5057610 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.55 46.0 3.02e-01 90.6% 56.5%
3261485 2007.1.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.55 41.0 3.43e-01 77.2% 93.3%
3406022 2498.1.1.11 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48,Peptidase_M48_N 0.55 48.0 3.34e-01 96.9% 66.6%
4945343 2498.1.1.10 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M48 0.55 42.0 3.50e-01 96.9% 44.8%
3896239 102.1.2.10 ↗ alpha arrays › HhH/H2TH › SAM/DNA-glycosylase › DNA-glycosylase › Q_salvage 0.55 40.0 3.03e-01 75.6% 97.2%
5076900 2007.1.1.24 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › DUF4350 0.54 39.0 3.33e-01 74.8% 96.4%
4928637 2498.1.1.6 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" › Peptidase_M3 0.54 44.0 2.95e-01 88.2% 56.5%
4181633 2005.1.1.30 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › BshC 0.54 40.0 3.07e-01 78.7% 87.1%
4423913 2004.1.1.414 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › GTP_EFTU, MMR_HSR1 0.53 42.0 2.99e-01 85.0% 80.8%
5061996 7512.1.1.30 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glyco_transf_4 0.52 34.0 2.77e-01 80.3% 35.3%
4073000 316.1.1.22 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › NTF-like 0.51 33.0 3.52e-01 74.0% 73.6%
4965710 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.51 44.0 3.27e-01 96.1% 61.7%
5043992 2007.1.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like 0.51 37.0 3.49e-01 76.4% 97.0%
4041544 2004.1.1.73 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.51 38.0 3.31e-01 78.0% 84.2%
D2 high residues 136-316
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4s3mB02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.62 36.0 4.67e-01 71.8% 100.0%
3aqtA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.60 43.0 4.24e-01 73.5% 92.8%
3ckdA02 1.20.58.360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Shigella T3SS effector IpaH defines 0.55 31.0 3.55e-01 100.0% 75.0%
6ig5A01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.55 36.0 4.03e-01 91.2% 86.2%
4im7A02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.53 43.0 4.12e-01 84.0% 93.8%
3ipiA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.53 42.0 3.70e-01 83.4% 89.6%
7fciA01 1.20.1530.20 Mainly Alpha › Up-down Bundle › Na+/H+ antiporter like fold › 0.51 40.0 3.43e-01 81.8% 65.9%
2q58B00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.51 44.0 3.65e-01 94.5% 88.1%
4fr2A02 1.20.1090.10 Mainly Alpha › Up-down Bundle › Dehydroquinate synthase-like, alpha domain › Dehydroquinate synthase-like - alpha domain 0.50 38.0 3.71e-01 77.9% 84.4%
2clbA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.50 30.0 3.18e-01 79.0% 64.2%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5040435 141.1.1.1 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › polyprenyl_synt 0.57 41.0 3.59e-01 74.0% 70.1%
4032738 141.1.1.3 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.55 45.0 3.87e-01 89.0% 96.0%
3709077 148.1.3.28 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_11 0.52 39.0 3.92e-01 95.0% 75.1%
4926931 141.1.1.3 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.52 43.0 3.70e-01 88.4% 97.2%
4969150 141.1.1.3 ↗ alpha bundles › Terpenoid synthases › Terpenoid synthases › Terpenoid synthases › UbiA 0.51 43.0 3.68e-01 89.0% 95.2%