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ON809764.1__WDS51485.1__SeF6a_171__00165

Bact-Vir

ON809764.1__WDS51485.1__SeF6a_171__00165

Identity

Accession:
ON809764 ↗
Kingdom:
phage

Quality

66.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Ackermannviridae› Kuttervirus› Salmonella_phage_SeF6a

TaxID: 2876785

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 medium residues 59-109
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24224.2 best DUF7440 63.4 3.00e-17 96.1% 42.6%
CATH (22)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3e82E02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.69 46.0 3.10e-01 70.6% 76.5%
3f61A02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.63 43.0 2.99e-01 72.5% 60.2%
3id6A01 3.30.420.220 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.62 42.0 3.39e-01 72.5% 36.8%
4at7A02 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.61 45.0 3.37e-01 84.3% 46.1%
2yf0A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 41.0 3.43e-01 70.6% 46.0%
4pdyA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.60 46.0 3.72e-01 80.4% 46.5%
3n6rA03 3.30.700.30 Alpha Beta › 2-Layer Sandwich › Glycoprotein, Type 4 Pilin › 0.60 40.0 3.00e-01 70.6% 44.4%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.58 43.0 3.49e-01 82.4% 46.7%
2f4qA01 3.30.66.10 Alpha Beta › 2-Layer Sandwich › Viral Topoisomerase I › DNA topoisomerase I domain 0.56 39.0 3.55e-01 74.5% 58.3%
4bdxA00 2.10.25.10 Mainly Beta › Ribbon › Laminin › Laminin 0.56 39.0 3.37e-01 72.5% 75.9%
2ra1A05 2.60.40.2120 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 38.0 3.31e-01 74.5% 79.1%
3kkjA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 39.0 2.88e-01 78.4% 75.8%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.55 41.0 3.24e-01 80.4% 47.7%
4oonA03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 36.0 3.04e-01 70.6% 89.4%
6qkgA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 38.0 3.11e-01 82.4% 93.7%
1j03A00 3.10.120.10 Alpha Beta › Roll › Flavocytochrome B2; Chain A, domain 1 › Cytochrome b5-like heme/steroid binding domain 0.52 37.0 3.06e-01 78.4% 95.1%
5c68A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 35.0 2.83e-01 70.6% 33.0%
2h21B01 3.90.1410.10 Alpha Beta › Alpha-Beta Complex › set domain protein methyltransferase, domain 1 › set domain protein methyltransferase, domain 1 0.51 36.0 2.35e-01 76.5% 99.2%
4a2lB01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 41.0 2.64e-01 98.0% 43.0%
3o8eB01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.50 34.0 3.23e-01 70.6% 74.2%
4azsA03 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.50 34.0 2.60e-01 72.5% 100.0%
2jh1A01 3.90.640.70 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › 0.50 37.0 2.99e-01 82.4% 89.8%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4235772 243.3.1.11 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › Staphopain_pro 0.68 50.0 3.50e-01 78.4% 48.2%
3711594 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.65 50.0 3.72e-01 86.3% 62.1%
3359607 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.64 46.0 3.90e-01 78.4% 83.3%
4946976 3407.1.1.5 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop 0.62 42.0 3.12e-01 72.5% 92.4%
5031945 3407.1.1.2 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop5_56-rel_N_Arc 0.62 42.0 3.16e-01 72.5% 97.0%
3970136 241.2.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like 0.61 45.0 3.61e-01 78.4% 67.6%
4011274 1207.1.1.0 ↗ a+b two layers › MTHFR SAM-binding regulatory domain › MTHFR SAM-binding regulatory domain › MTHFR SAM-binding regulatory domain 0.61 52.0 3.36e-01 100.0% 68.1%
4218376 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.60 44.0 3.69e-01 84.3% 49.0%
4864430 3740.1.1.1 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_N,FrhB_FdhB_C 0.60 49.0 3.13e-01 94.1% 43.9%
3284412 241.11.1.6 ↗ a+b two layers › Type III secretory system chaperone-like › YjbR-like › YjbR-like › TfoX_N 0.59 40.0 3.26e-01 72.5% 38.1%
2482441 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.59 42.0 3.27e-01 78.4% 84.0%
3416827 316.1.1.16 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DZF_N 0.58 46.0 3.17e-01 92.2% 53.9%
3593233 719.2.1.0 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like 0.58 39.0 3.15e-01 70.6% 50.5%
3791863 5.1.4.258 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › RCC1, RCC1_2 0.57 47.0 2.91e-01 98.0% 55.1%
4269649 241.2.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › Frataxin-like › Frataxin-like › Frataxin_Cyay 0.56 41.0 3.30e-01 80.4% 61.8%
3301519 802.1.1.0 ↗ a+b two layers › Hypothetical protein TM0160 › Hypothetical protein TM0160 › Hypothetical protein TM0160 0.56 38.0 3.37e-01 72.5% 47.5%
5072250 316.1.1.41 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DUF6036 0.55 40.0 2.90e-01 80.4% 24.7%
4110937 874.1.1.2 ↗ a+b duplicates or obligate multimers › Smc hinge domain › Smc hinge domain › Smc hinge domain › MukB_hinge 0.55 46.0 3.30e-01 100.0% 73.5%
3478678 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 38.0 3.42e-01 72.5% 65.3%
5051120 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.54 44.0 2.85e-01 94.1% 21.5%
5058484 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.54 37.0 3.42e-01 74.5% 51.4%
3879359 2003.1.2.18 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.54 40.0 2.31e-01 80.4% 88.6%
4937562 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.54 37.0 3.38e-01 72.5% 71.4%
3172856 5.1.4.575 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PF30290 0.54 41.0 2.62e-01 84.3% 23.9%
3230836 5.1.1.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed › Hemopexin 0.54 43.0 3.03e-01 98.0% 71.0%
4023242 220.1.1.187 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › VPS13_C 0.54 39.0 3.08e-01 80.4% 56.0%
4928207 319.1.1.0 ↗ beta sandwiches › HSP20-like › HSP20-like chaperones › HSP20-like chaperones 0.53 42.0 3.89e-01 100.0% 90.7%
4177976 2487.1.1.3 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" › Aconitase_C 0.53 42.0 3.45e-01 100.0% 56.5%
4428913 5.1.4.26 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Reg_prop 0.53 43.0 2.68e-01 94.1% 86.8%
3399725 220.1.1.50 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_17 0.51 39.0 3.12e-01 88.2% 76.5%
4537639 874.1.1.0 ↗ a+b duplicates or obligate multimers › Smc hinge domain › Smc hinge domain › Smc hinge domain 0.50 42.0 2.46e-01 100.0% 46.8%
D2 medium residues 130-166
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24224.2 best DUF7440 30.4 4.90e-07 100.0% 31.3%
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.60 39.0 3.54e-01 100.0% 51.0%
5nohA00 1.20.120.1350 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Pneumovirus matrix protein 2 (M2), zinc-binding domain 0.55 43.0 3.28e-01 97.3% 97.1%
2etjA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 44.0 2.84e-01 100.0% 31.4%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3257377 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.92 84.0 6.68e-01 100.0% 52.9%
3635200 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.91 81.0 7.03e-01 100.0% 67.3%
3265541 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.87 78.0 7.35e-01 100.0% 90.9%
3222410 130.1.1.0 ↗ alpha arrays › LEM/SAP HeH motif-like › LEM/SAP HeH motif › LEM/SAP HeH motif 0.87 77.0 7.34e-01 100.0% 86.0%
3225681 103.1.1.18 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › Regnase_1_C 0.64 47.0 4.46e-01 81.1% 86.7%