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NC_015252.1__YP_004301292.1__BrPhNF5_gp17__00017

Bact-Vir

NC_015252.1__YP_004301292.1__BrPhNF5_gp17__00017

Identity

Accession:
NC_015252 ↗
Kingdom:
phage

Quality

83.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Brochothrix_phage_NF5

TaxID: 764561

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 394-464
PDB
Domain cluster: rep: NC_019449.1__YP_007002359.1__F368_gp20__00020__D364-427
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1q57G01 2.20.25.180 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.63 39.0 3.88e-01 70.4% 60.3%
1o70A01 2.30.180.10 Mainly Beta › Roll › FAS1 domain › FAS1 domain 0.55 46.0 3.73e-01 93.0% 47.1%
4u3qB00 2.40.128.640 Mainly Beta › Beta Barrel › Lipocalin › 0.55 39.0 3.56e-01 83.1% 54.5%
2cn3A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 47.0 3.08e-01 100.0% 50.8%
4nkbA01 3.30.1120.120 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.52 46.0 3.96e-01 100.0% 71.9%
1srqA01 3.30.1120.160 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.52 43.0 3.47e-01 90.1% 71.7%
5f3yA05 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.51 35.0 3.41e-01 70.4% 75.3%
6n8pA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 43.0 2.82e-01 100.0% 39.7%
2fpnA02 3.30.360.40 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › YwmB-like 0.51 34.0 3.59e-01 74.6% 76.9%
1iwmA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.50 39.0 2.95e-01 97.2% 33.9%
3dtdD00 2.60.40.1880 Mainly Beta › Sandwich › Immunoglobulin-like › Invasion associated locus B (IalB) protein 0.50 43.0 3.50e-01 100.0% 74.5%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3590950 79.1.1.0 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain 0.75 60.0 4.62e-01 98.6% 39.4%
4188272 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.62 43.0 3.31e-01 80.3% 32.1%
363983 234.1.1.1 ↗ a+b two layers › Microbial ribonucleases-like › Microbial ribonucleases › Microbial ribonucleases › Ribonuclease 0.60 48.0 4.38e-01 97.2% 66.3%
4347651 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.57 50.0 3.69e-01 98.6% 90.3%
3724738 219.1.1.6 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.56 46.0 3.05e-01 93.0% 77.1%
4031984 3894.1.1.1 ↗ beta meanders › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › O-GlcNAc transferase GtfA beta-meander domain › Asp1 0.55 47.0 3.99e-01 100.0% 89.6%
3512143 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.53 37.0 3.82e-01 74.6% 78.5%
3988729 4097.1.1.0 ↗ a+b two layers › Lp2179-like › Lp2179-like › Lp2179-like 0.53 34.0 3.12e-01 98.6% 48.4%
3424129 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 45.0 2.80e-01 100.0% 35.4%
4110683 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.52 45.0 3.30e-01 100.0% 36.2%
3924523 844.1.1.0 ↗ beta barrels › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain › Transcriptional factor tubby, C-terminal domain 0.52 45.0 3.21e-01 97.2% 83.3%
4057793 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.51 42.0 3.26e-01 100.0% 39.4%
3939750 5.1.4.55 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › ELYS-bb 0.51 43.0 2.71e-01 100.0% 28.4%
3415744 5.1.4.420 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_Aladin 0.51 42.0 2.76e-01 100.0% 36.6%
4427829 213.1.1.0 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) 0.50 42.0 3.56e-01 95.8% 88.0%
3514970 4.1.1.9 ↗ beta barrels › SH3 › SH3 › SH3 › TUDOR 0.50 34.0 3.19e-01 76.1% 55.6%
4071195 206.1.1.11 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.50 38.0 2.37e-01 81.7% 54.5%
D2 high residues 587-770
PDB
Domain cluster: rep: NC_073481.1__YP_010756090.1__QEJ66_gp08__00008__D21-190
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF18013.7 best Phage_lysozyme2 104.9 5.50e-30 83.2% 100.0%
D3 high residues 788-910
PDB
Domain cluster: rep: LR990834.1__CAD7757509.1__ATHO_20__00020__D167-317
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01551.30 best Peptidase_M23 92.9 1.60e-26 82.1% 90.6%
D4 medium residues 1-179_328-343
PDB
Domain cluster: rep: GQ141189.1__ADD65705.1__BBP_0925__00007__D1-178
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2nwaA01 2.40.240.20 Mainly Beta › Beta Barrel › Ribosomal Protein L25; Chain P › Hypothetical PUA domain-like; domain 1 0.66 26.0 4.07e-01 80.5% 92.0%
2rdeA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.60 32.0 4.20e-01 99.0% 91.0%
2fbjH02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 24.0 3.75e-01 70.8% 95.9%
4p02A03 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.58 33.0 4.06e-01 100.0% 86.9%
3b5mA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.58 33.0 4.23e-01 83.1% 93.3%
3wdhA01 2.60.40.2320 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 28.0 3.89e-01 90.3% 94.8%
2ecuA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.53 34.0 3.83e-01 97.4% 82.6%
2nr4A01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 31.0 3.69e-01 83.1% 85.0%
2qckA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 34.0 3.88e-01 97.4% 86.1%
4f07E00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 33.0 3.78e-01 97.4% 84.6%
1rz1A00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 33.0 3.75e-01 97.4% 84.2%
3cb0D00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.50 34.0 3.81e-01 97.4% 83.9%
ECOD (14)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3604611 3070.1.1.0 ↗ a+b complex topology › N0 domain in phage tail proteins and secretins-like › N0 domain in phage tail proteins and secretins › N0 domain in phage tail proteins and secretins 0.73 36.0 5.13e-01 87.7% 100.0%
3389361 1.1.7.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.66 31.0 4.32e-01 93.3% 89.5%
3267250 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 30.0 4.44e-01 82.1% 100.0%
1161129 1.1.5.25 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › PilZ 0.60 33.0 4.25e-01 100.0% 92.0%
3868227 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 30.0 4.18e-01 89.7% 100.0%
4172447 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 25.0 3.77e-01 90.8% 100.0%
5059044 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 29.0 4.06e-01 92.3% 100.0%
1108188 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.53 33.0 4.10e-01 89.2% 97.6%
1560729 1.1.5.35 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › YwpF 0.53 36.0 4.11e-01 87.7% 92.4%
5002629 1.1.5.17 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › DUF447_N 0.51 31.0 3.60e-01 83.1% 82.9%
3949576 331.3.1.11 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.50 27.0 3.02e-01 79.0% 63.1%
3251396 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 28.0 3.59e-01 93.8% 97.1%
3282714 331.3.1.11 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Polyketide_cyc2 0.50 25.0 2.92e-01 90.8% 63.9%
5055743 1.1.5.10 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Flavin_Reduct 0.50 34.0 3.94e-01 97.4% 94.3%
D5 medium residues 208-295
PDB
Domain cluster: rep: OM112210.1__UKL30015.1__X__00016__D215-307
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cddB03 3.30.1920.10 Alpha Beta › 2-Layer Sandwich › Phage tail proteins - 2 layer sandwich fold › Baseplate protein-like domains - 2 layer sandwich fold 0.81 47.0 5.61e-01 100.0% 86.4%
6s6yD01 3.30.70.520 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 35.0 2.97e-01 72.7% 81.5%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4957567 3071.1.1.0 ↗ a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins 0.73 51.0 5.64e-01 100.0% 90.0%
2468520 3071.1.1.0 ↗ a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins 0.64 49.0 5.19e-01 100.0% 92.2%
3370099 212.1.1.10 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › RNase_PH 0.58 51.0 4.55e-01 100.0% 96.0%
5079475 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.50 37.0 3.37e-01 100.0% 55.4%
D6 medium residues 480-579
PDB
Domain cluster: rep: NC_055907.1__YP_010113710.1__KNV65_gp086__00086__D493-591
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4q1vA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.50 43.0 2.88e-01 98.0% 45.3%
5aj3P00 3.30.1320.10 Alpha Beta › 2-Layer Sandwich › S16 Ribosomal Protein; Chain: A; › Ribosomal protein S16 0.50 36.0 3.43e-01 74.0% 71.8%
1cukA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 27.0 3.19e-01 82.0% 77.3%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4178833 2.1.1.287 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Zn_ribbon_TiaS 0.59 40.0 3.41e-01 70.0% 95.8%
2559738 79.1.1.9 ↗ beta duplicates or obligate multimers › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Phage tail fiber protein trimerization domain › Gp34_trimer 0.59 48.0 3.29e-01 100.0% 24.9%
2883295 837.1.1.1 ↗ a+b two layers › Ribosomal protein S16 › Ribosomal protein S16 › Ribosomal protein S16 › Ribosomal_S16 0.51 36.0 3.36e-01 73.0% 65.9%
4337382 2.1.1.14 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › RuvA_N 0.50 27.0 3.05e-01 81.0% 68.0%