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NC_013599.1__YP_003344925.1__Xfas53_gene35__00035

Bact-Vir

NC_013599.1__YP_003344925.1__Xfas53_gene35__00035

Identity

Accession:
NC_013599 ↗
Kingdom:
phage

Quality

86.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Xylella_phage_Xfas53

TaxID: 670252

Cluster

View cluster (2 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 4-118
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF11650.15 best P22_Tail-4 27.6 4.10e-06 96.5% 58.5%
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1vt0k00 1.10.3230.20 Mainly Alpha › Orthogonal Bundle › Hypothetical protein yqbg › P22 tail accessory factor (Gp4) 0.85 81.0 7.40e-01 100.0% 79.3%
2ymmA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.61 36.0 4.29e-01 79.1% 90.4%
4rocA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.60 42.0 4.37e-01 87.0% 80.6%
2k3oA00 1.10.274.60 Mainly Alpha › Orthogonal Bundle › Enzyme I; Chain A, domain 2 › Spidroin, repetitive domain 0.57 40.0 3.93e-01 73.0% 93.8%
1zp2A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.57 41.0 4.20e-01 86.1% 77.7%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.57 40.0 3.95e-01 76.5% 67.2%
2f33A01 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.57 35.0 4.21e-01 88.7% 98.6%
1t3dA01 1.10.3130.10 Mainly Alpha › Orthogonal Bundle › serine acetyltransferase, domain 1 › serine acetyltransferase, domain 1 0.56 43.0 4.09e-01 82.6% 70.7%
1h97A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.56 40.0 3.76e-01 75.7% 91.8%
1x42A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.54 35.0 3.91e-01 83.5% 89.2%
3cx3B01 3.40.50.1980 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Nitrogenase molybdenum iron protein domain 0.53 46.0 4.24e-01 96.5% 95.5%
1vw4T01 6.10.330.20 Special › Helix non-globular › Monooxygenase › 0.53 43.0 4.35e-01 100.0% 87.5%
3f0cA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 43.0 4.04e-01 87.8% 74.3%
1xwjA01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.53 38.0 3.66e-01 74.8% 68.5%
4yozA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.52 42.0 3.69e-01 87.8% 61.1%
1gcvA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 37.0 3.55e-01 74.8% 86.4%
3phuA01 3.90.70.80 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.52 39.0 3.60e-01 81.7% 61.0%
5ekcF01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.52 37.0 2.82e-01 74.8% 53.2%
2wy4A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.52 40.0 3.82e-01 84.3% 95.0%
1jr8A00 1.20.120.310 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › ERV/ALR sulfhydryl oxidase domain 0.51 37.0 3.88e-01 74.8% 88.6%
2pbeA02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.51 37.0 3.66e-01 92.2% 69.8%
3dewA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.51 41.0 3.82e-01 86.1% 77.1%
5iduC03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.50 45.0 4.04e-01 98.3% 91.2%
ECOD (22)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3108018 4275.1.1.0 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like 0.88 85.0 7.55e-01 100.0% 80.3%
1429455 4275.1.1.4 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › P22_Tail-4 0.86 82.0 7.44e-01 100.0% 79.5%
3691337 4177.1.1.2 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › BAR 0.63 52.0 4.18e-01 87.8% 89.3%
3202225 3651.1.1.0 ↗ alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain 0.61 39.0 3.30e-01 80.9% 38.9%
3963181 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.59 40.0 3.03e-01 72.2% 29.1%
3953228 633.6.1.1 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA_dh_1 0.58 40.0 3.00e-01 72.2% 29.1%
3594923 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 34.0 2.71e-01 86.1% 29.5%
3692081 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.56 39.0 3.56e-01 70.4% 58.0%
3742529 109.26.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.55 42.0 2.89e-01 80.0% 50.1%
3844417 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.54 38.0 2.84e-01 71.3% 49.8%
3993403 616.1.1.26 ↗ alpha arrays › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › S15/NS1 RNA-binding domain › NPP-6_helical 0.53 43.0 3.88e-01 87.0% 97.5%
5000698 604.38.1.0 ↗ alpha bundles › Spectrin repeat-like › Legionella effector SdeA 3-helical bundle › Legionella effector SdeA 3-helical bundle 0.53 38.0 4.00e-01 99.1% 81.9%
3799907 633.21.1.0 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.53 37.0 3.63e-01 73.0% 66.2%
3600401 193.1.1.0 ↗ alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like 0.53 38.0 3.65e-01 73.9% 66.2%
3712422 193.1.1.0 ↗ alpha bundles › CH domain-like › Calponin-homology domain-like › Calponin-homology domain-like 0.53 38.0 3.66e-01 75.7% 73.3%
4064194 186.1.1.4 ↗ alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › Phage_int_SAM_4 0.52 41.0 4.09e-01 83.5% 90.0%
3383812 109.4.1.1424 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_1, PPR_2, PPR_3, TPR_24 0.51 31.0 2.36e-01 87.8% 25.5%
3964875 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.51 44.0 4.24e-01 95.7% 83.0%
4008271 5051.1.1.2 ↗ alpha complex topology › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › Sodium:neurotransmitter symporter family (SNF)-like › AA_permease 0.51 42.0 2.89e-01 90.4% 92.6%
3208316 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 41.0 3.28e-01 97.4% 42.6%
4012501 5059.1.1.42 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter › EamA, SLC35F, DUF3955 0.51 46.0 3.34e-01 100.0% 73.4%
4944448 5059.1.1.0 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter 0.50 43.0 4.13e-01 92.2% 83.8%