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GQ421471.1__ACV41108.1__Xfas53_gene08__00008

Bact-Vir

GQ421471.1__ACV41108.1__Xfas53_gene08__00008

Identity

Accession:
GQ421471 ↗
Kingdom:
phage

Quality

74.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xylella_phage_Xfas53

TaxID: 670252

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 51-153
PDB
Domain cluster: rep: MH268168.1__AWY10457.1__PFP1_07__00007__D2-95
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02498.23 best Bro-N 71.3 1.20e-19 86.4% 99.0%
D2 high residues 184-284
PDB
Domain cluster: rep: Bro25__YP_009702174__Heliothis_virescens_ascovirus_3g__1246651__D4-128
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02498.23 best Bro-N 89.7 2.20e-25 87.1% 99.0%
D3 high residues 298-347
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2x2vA00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.79 61.0 5.51e-01 84.0% 66.2%
6ynwH01 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.78 59.0 5.22e-01 84.0% 58.1%
2bduA02 1.10.150.340 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Pyrimidine 5'-nucleotidase (UMPH-1), N-terminal domain 0.70 54.0 4.81e-01 86.0% 59.5%
2om6A02 1.10.150.400 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.70 55.0 4.88e-01 94.0% 64.6%
3qnmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.69 57.0 4.87e-01 100.0% 62.2%
3k1zA02 1.10.150.720 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Haloacid dehalogenase-like hydrolase 0.69 58.0 5.00e-01 98.0% 72.6%
1wpbG01 1.10.287.680 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.66 50.0 4.87e-01 88.0% 75.9%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 51.0 4.93e-01 86.0% 78.9%
4ex8A00 3.40.1790.10 Alpha Beta › 3-Layer(aba) Sandwich › Indigoidine synthase fold › Indigoidine synthase domain 0.65 50.0 3.13e-01 88.0% 15.9%
5domA00 1.10.110.10 Mainly Alpha › Orthogonal Bundle › Hydrophobic Seed Protein › Plant lipid-transfer and hydrophobic proteins 0.63 50.0 4.27e-01 94.0% 57.8%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.63 49.0 4.25e-01 86.0% 61.0%
2kc7A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.62 49.0 4.01e-01 90.0% 46.5%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.61 49.0 3.93e-01 88.0% 69.9%
2imhA01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.61 51.0 3.44e-01 100.0% 28.2%
2qkdA02 2.60.120.1040 Mainly Beta › Sandwich › Jelly Rolls › ZPR1, A/B domain 0.61 44.0 3.26e-01 80.0% 34.3%
3p4tA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.60 50.0 3.69e-01 98.0% 76.7%
1b48A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.60 48.0 3.96e-01 100.0% 75.2%
3nynA03 1.10.167.10 Mainly Alpha › Orthogonal Bundle › Regulator of G-protein Signalling 4; domain 2 › Regulator of G-protein Signalling 4, domain 2 0.60 49.0 4.32e-01 100.0% 67.9%
6x6nA01 1.20.120.260 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Virulence factor YopE uncharacterised domain 0.60 47.0 3.72e-01 92.0% 52.1%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.57 48.0 4.29e-01 98.0% 83.8%
3iqtA01 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.56 47.0 3.73e-01 100.0% 49.1%
1a17A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.56 48.0 3.38e-01 98.0% 47.8%
1avcA07 1.10.220.10 Mainly Alpha › Orthogonal Bundle › Annexin V; domain 1 › Annexin 0.54 42.0 3.69e-01 84.0% 84.0%
1j09A05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.51 42.0 3.51e-01 100.0% 62.2%
ECOD (9)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4582471 3355.1.1.11 ↗ alpha complex topology › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › GntP_permease 0.82 74.0 4.23e-01 100.0% 70.6%
3947811 3355.1.1.11 ↗ alpha complex topology › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › dicarboxylate/sodium symporter › GntP_permease 0.78 67.0 3.89e-01 98.0% 90.5%
5039705 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.77 66.0 4.34e-01 100.0% 68.6%
4982322 5081.1.1.1 ↗ alpha bundles › Rhomboid-like › Rhomboid-like › Rhomboid-like › Rhomboid 0.77 67.0 4.34e-01 100.0% 66.4%
3580853 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.71 59.0 5.42e-01 94.0% 80.0%
5028635 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.61 49.0 3.66e-01 98.0% 88.3%
3693121 375.1.1.26 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Rpr2 0.60 52.0 4.12e-01 100.0% 76.4%
3590053 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.60 46.0 3.86e-01 84.0% 51.8%
2813092 2003.1.5.66 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11 0.58 43.0 2.88e-01 94.0% 18.4%
D4 high residues 360-430
PDB
Domain cluster: rep: IMGVR_UViG_3300000568_000096-3300000568-Draft_1006303631__D183-251
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1on2A01 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 0.70 45.0 4.51e-01 85.9% 63.9%
1c0wA01 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 0.69 43.0 4.31e-01 85.9% 61.6%
3o27B00 2.10.260.10 Mainly Beta › Ribbon › Pemi-like Protein 1; Chain: D › 0.65 33.0 3.63e-01 71.8% 57.9%
2fxaA00 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 0.62 44.0 3.33e-01 73.2% 71.2%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.59 28.0 3.10e-01 87.3% 49.1%
1mhyD00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.57 41.0 2.55e-01 80.3% 35.9%
2v4jB03 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 40.0 4.17e-01 94.4% 83.1%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 43.0 3.29e-01 87.3% 87.6%
2nq2D00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 40.0 2.82e-01 78.9% 84.7%
2zj2A03 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 0.54 44.0 4.13e-01 85.9% 98.8%
4ivkA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 39.0 2.46e-01 78.9% 91.8%
2isyA01 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 0.53 44.0 3.50e-01 88.7% 70.3%
3hr6A02 2.60.40.740 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 42.0 3.27e-01 87.3% 66.2%
5h7kA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 41.0 2.92e-01 87.3% 83.5%
3l7wA00 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 0.53 47.0 4.12e-01 100.0% 68.6%
2zihC00 1.10.3630.10 Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like 0.52 46.0 3.09e-01 100.0% 64.2%
2mlgA00 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 0.52 40.0 3.95e-01 87.3% 76.6%
4ic1D00 3.90.320.10 Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › 0.52 43.0 3.23e-01 100.0% 82.0%
5a4aA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 43.0 3.20e-01 100.0% 83.2%
4ifdI01 2.40.50.880 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 38.0 3.63e-01 81.7% 95.3%
3vwoA02 2.10.70.40 Mainly Beta › Ribbon › Complement Module; domain 1 › peptidoglycan hydrolase 0.51 27.0 3.01e-01 87.3% 62.7%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 38.0 2.90e-01 83.1% 83.2%
4ejoA00 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 0.50 41.0 3.63e-01 100.0% 59.8%
ECOD (34)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3941757 101.1.9.32 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › ANT 0.80 71.0 5.84e-01 100.0% 62.3%
4957076 101.1.9.134 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › DUF2067 0.79 51.0 5.52e-01 97.2% 78.3%
3262137 101.1.2.167 ↗ alpha arrays › HTH › HTH › winged helix domain › XRN1_D2_D3 0.77 70.0 5.43e-01 100.0% 50.7%
5024287 103.5.1.11 ↗ alpha arrays › RuvA-C › post-HMGL domain-like › post-HMGL domain-like › DUF2067 0.71 50.0 4.97e-01 100.0% 70.7%
4033119 101.1.9.63 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain › Bro-N 0.67 49.0 4.40e-01 100.0% 56.0%
5053880 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.65 33.0 3.83e-01 87.3% 68.9%
4992821 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.63 44.0 3.53e-01 71.8% 60.7%
4995729 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 46.0 3.21e-01 90.1% 23.4%
5043001 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.61 43.0 3.84e-01 74.6% 66.7%
3283375 2005.1.1.95 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › PF28097 0.61 55.0 3.58e-01 98.6% 41.7%
4928190 101.1.2.26 ↗ alpha arrays › HTH › HTH › winged helix domain › HxlR 0.59 43.0 4.16e-01 78.9% 81.0%
3714583 2004.1.1.427 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › RHSP, RHS_N 0.59 41.0 2.61e-01 73.2% 14.7%
3269923 101.1.21.1 ↗ alpha arrays › HTH › HTH › HTH in T7 RNA polymerase › RPOL_N 0.56 44.0 3.16e-01 87.3% 87.4%
3221418 5001.1.1.0 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like 0.56 40.0 2.63e-01 77.5% 53.9%
4001237 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 42.0 4.52e-01 97.2% 95.0%
5001098 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 45.0 4.17e-01 87.3% 82.2%
4950221 101.1.2.143 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_34 0.54 47.0 4.14e-01 100.0% 64.8%
5031473 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.54 46.0 4.08e-01 100.0% 65.7%
3988732 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.54 45.0 3.96e-01 100.0% 62.0%
5071269 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 47.0 3.38e-01 100.0% 35.2%
4996670 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 46.0 4.30e-01 100.0% 80.0%
4947701 101.1.2.882 ↗ alpha arrays › HTH › HTH › winged helix domain › FeoA 0.53 43.0 3.80e-01 85.9% 74.0%
4949793 101.1.2.652 ↗ alpha arrays › HTH › HTH › winged helix domain › Fe_dep_repr_C 0.52 42.0 3.41e-01 85.9% 74.6%
5036146 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 45.0 4.54e-01 100.0% 95.7%
2409292 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.52 47.0 4.12e-01 100.0% 68.3%
5071263 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 43.0 4.04e-01 100.0% 74.4%
5041315 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.52 44.0 3.99e-01 100.0% 69.0%
5044327 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 44.0 3.98e-01 100.0% 68.0%
5056596 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.52 37.0 2.48e-01 78.9% 26.9%
3512122 4081.1.1.5 ↗ beta sandwiches › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Baculovirus p35 protein-related › Peptidase_M1_N 0.51 35.0 2.65e-01 71.8% 73.5%
3587554 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.51 43.0 3.94e-01 100.0% 70.0%
3804069 101.1.2.396 ↗ alpha arrays › HTH › HTH › winged helix domain › WHD_ROQ1 0.51 41.0 3.69e-01 85.9% 68.4%
3495633 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.50 34.0 2.09e-01 71.8% 45.7%
4944051 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.50 43.0 3.34e-01 100.0% 42.9%