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NC_041917.1__YP_009599943.1__FDH34_gp473__00447

Bact-Vir

NC_041917.1__YP_009599943.1__FDH34_gp473__00447

Identity

Accession:
NC_041917 ↗
Kingdom:
phage

Quality

67.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Eneladusvirus› Serratia_phage_BF

TaxID: 1962671

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 high residues 6-85
PDB
Domain cluster: representative
CATH (30)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hrgA02 3.30.420.260 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, C-terminal domain 0.72 50.0 4.46e-01 100.0% 50.9%
3c6aA00 3.30.420.240 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.68 50.0 3.73e-01 100.0% 31.3%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.67 49.0 5.07e-01 90.0% 81.3%
7kx7A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.65 51.0 3.84e-01 100.0% 33.0%
1nbwA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 50.0 4.26e-01 100.0% 53.0%
6r2nA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.62 55.0 4.56e-01 100.0% 56.4%
6oziB00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.61 53.0 3.81e-01 100.0% 32.8%
2hhiA01 3.30.565.40 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Fervidobacterium nodosum Rt17-B1 like 0.60 38.0 3.44e-01 80.0% 43.2%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.59 45.0 3.97e-01 83.7% 77.2%
4g79A00 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.58 47.0 4.00e-01 88.7% 67.9%
2og9A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 52.0 4.39e-01 97.5% 93.1%
4g3wA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.58 44.0 3.72e-01 82.5% 53.3%
3f6gA02 3.30.160.340 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 42.0 4.56e-01 83.7% 98.4%
3ga2A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.58 49.0 3.63e-01 100.0% 77.1%
4ibnA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 51.0 3.90e-01 100.0% 69.7%
4bgjA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.58 42.0 3.76e-01 78.8% 92.4%
3gocA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.57 49.0 3.64e-01 100.0% 76.8%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 45.0 4.04e-01 87.5% 83.5%
1vwxr00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.56 43.0 3.77e-01 100.0% 54.4%
3uc2A00 2.60.40.3340 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4426 0.55 47.0 4.12e-01 95.0% 83.1%
2ehgA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 47.0 3.95e-01 100.0% 79.9%
3hpcX00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.55 40.0 3.29e-01 78.8% 89.0%
2xzmE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 39.0 3.43e-01 81.2% 51.7%
2vqeE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 38.0 4.18e-01 81.2% 93.8%
4ikbA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 38.0 3.37e-01 78.8% 86.0%
1rm6B02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.53 46.0 4.21e-01 100.0% 79.4%
5oj2B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 44.0 4.16e-01 95.0% 99.0%
3kf8A00 2.40.50.1040 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 42.0 3.16e-01 90.0% 46.4%
2i4kA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.51 37.0 3.35e-01 80.0% 94.5%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 42.0 3.67e-01 100.0% 59.7%
ECOD (80)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5019289 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.77 56.0 4.13e-01 100.0% 30.2%
3165222 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.74 56.0 5.54e-01 100.0% 76.5%
3983036 2484.1.1.119 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS1 0.72 52.0 5.69e-01 100.0% 95.4%
3385434 2484.1.1.261 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27038 0.71 48.0 4.01e-01 100.0% 40.0%
3214642 2484.1.1.50 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Dimer_Tnp_hAT 0.69 57.0 3.60e-01 100.0% 17.1%
3254541 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.69 47.0 4.22e-01 100.0% 50.9%
4975080 2484.1.1.77 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Terminase_6C 0.68 51.0 3.91e-01 100.0% 34.6%
3206632 896.1.1.2 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP14 0.68 50.0 4.92e-01 91.3% 72.9%
4938125 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.68 49.0 4.84e-01 87.5% 71.8%
5027780 252.2.1.0 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like 0.67 48.0 5.35e-01 80.0% 100.0%
4319822 2484.1.1.26 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.66 55.0 3.90e-01 100.0% 29.2%
3272081 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 50.0 3.93e-01 82.5% 38.8%
3931129 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.65 49.0 3.31e-01 100.0% 22.1%
3988130 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.64 58.0 5.00e-01 100.0% 78.4%
5004718 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 57.0 4.63e-01 100.0% 80.0%
3504767 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.64 37.0 3.94e-01 70.0% 65.7%
5027953 2484.1.1.101 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS240 0.63 56.0 4.31e-01 100.0% 54.6%
3408176 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.63 45.0 3.99e-01 76.2% 95.8%
4593266 325.1.7.0 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.63 43.0 4.46e-01 78.8% 76.0%
4289516 2484.1.1.223 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27036 0.62 54.0 4.07e-01 100.0% 48.1%
4952918 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 55.0 5.36e-01 100.0% 93.3%
3281018 330.2.1.0 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) 0.62 45.0 4.19e-01 85.0% 61.0%
4974772 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.62 51.0 3.86e-01 100.0% 37.4%
3241023 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 51.0 3.16e-01 100.0% 15.2%
4368803 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.61 54.0 4.20e-01 100.0% 90.0%
4956532 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.61 53.0 4.16e-01 100.0% 90.6%
3221278 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 49.0 3.33e-01 100.0% 23.3%
3711062 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.60 49.0 4.60e-01 90.0% 73.0%
5079440 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 53.0 4.03e-01 100.0% 41.0%
3437883 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.60 45.0 4.48e-01 82.5% 76.5%
3541127 2.1.1.170 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › SHLD2_OB2 0.59 38.0 3.99e-01 93.8% 70.7%
4177430 7520.1.1.1 ↗ a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like › CinA 0.59 44.0 3.63e-01 83.7% 42.7%
3706741 5.1.3.28 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › BNR_3 0.59 45.0 3.20e-01 82.5% 37.1%
3742583 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.58 51.0 3.57e-01 100.0% 31.7%
4439294 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.58 50.0 4.41e-01 100.0% 85.6%
3634956 2484.1.1.26 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.58 49.0 3.86e-01 100.0% 55.8%
3396774 220.1.1.168 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Tmpp129 0.58 42.0 3.79e-01 100.0% 56.4%
3713023 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 50.0 4.01e-01 100.0% 48.8%
3678038 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.57 43.0 4.42e-01 78.8% 85.3%
3624927 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 44.0 4.10e-01 87.5% 64.8%
3258452 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 46.0 4.05e-01 88.7% 59.2%
3898198 220.1.1.184 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_S11IP 0.57 43.0 3.74e-01 93.8% 52.0%
5044528 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.57 50.0 3.74e-01 100.0% 81.4%
3936392 101.1.12.3 ↗ alpha arrays › HTH › HTH › HTH motif inserted in other structures › SAS-6_N 0.57 46.0 3.73e-01 88.7% 72.9%
3438132 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 45.0 4.20e-01 90.0% 71.4%
4990321 2484.1.1.59 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.57 49.0 3.61e-01 100.0% 79.1%
3506428 220.1.1.168 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Tmpp129 0.57 37.0 3.22e-01 100.0% 40.0%
3903091 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.57 41.0 2.65e-01 77.5% 29.7%
4253671 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.57 49.0 4.04e-01 100.0% 81.9%
5047908 2484.1.1.59 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › NurA 0.56 49.0 3.31e-01 100.0% 78.2%
5060223 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.56 50.0 3.71e-01 100.0% 82.7%
3456535 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 44.0 4.06e-01 88.7% 78.2%
5057921 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.56 36.0 2.59e-01 78.8% 21.4%
3841771 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 43.0 3.54e-01 83.7% 66.0%
3564807 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 42.0 3.51e-01 83.7% 63.9%
3592232 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 48.0 3.37e-01 100.0% 72.5%
3673251 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.55 46.0 3.68e-01 95.0% 66.3%
5035771 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.55 48.0 4.17e-01 100.0% 87.7%
3183690 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 41.0 3.41e-01 96.2% 43.3%
4969849 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.55 47.0 4.04e-01 100.0% 86.7%
3718117 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.54 46.0 3.30e-01 100.0% 74.5%
3451989 5.1.3.118 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.54 44.0 2.96e-01 90.0% 37.8%
4003463 220.1.1.168 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Tmpp129 0.54 39.0 3.44e-01 100.0% 49.6%
3205486 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 46.0 4.03e-01 100.0% 61.6%
3444419 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 43.0 4.11e-01 92.5% 80.0%
4012805 277.1.1.0 ↗ a+b two layers › PX domain › PX domain › PX domain 0.54 40.0 3.54e-01 83.7% 73.8%
3619246 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.53 38.0 3.56e-01 83.7% 58.1%
4838879 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.53 38.0 3.81e-01 81.2% 73.8%
3989857 706.2.1.0 ↗ beta complex topology › Head domain of nucleotide exchange factor GrpE › G5 and E repeats in surface protein G › G5 and E repeats in surface protein G 0.53 40.0 3.40e-01 82.5% 62.1%
4886524 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.53 38.0 4.13e-01 82.5% 93.8%
3667340 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.52 43.0 3.71e-01 88.7% 73.6%
3577548 331.12.1.0 ↗ a+b two layers › TBP-like › YugN-like › YugN-like 0.52 39.0 3.44e-01 77.5% 71.7%
3621723 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.52 38.0 2.74e-01 100.0% 24.8%
3759486 330.1.1.2 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Ribosomal_S5 0.52 37.0 3.77e-01 81.2% 76.2%
3990561 11.1.1.955 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Fn3_Dep-1_4th 0.52 44.0 4.06e-01 95.0% 93.3%
4887510 3274.1.1.1 ↗ extended segments › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › N-terminal region in 40S ribosomal protein rpS2 (S5p) › Ribosomal_S5 0.52 36.0 3.60e-01 81.2% 70.2%
4013174 243.1.1.83 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › PF26061 0.51 46.0 3.48e-01 98.8% 74.1%
3928618 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.51 38.0 3.60e-01 88.7% 64.8%
3992484 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 42.0 3.75e-01 93.8% 70.8%
3548557 11.1.1.21 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Tissue_fac 0.50 45.0 4.07e-01 100.0% 87.3%