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5H_04062016_scaffold_1_prodigal-single.1__X__X__00026

Bact-Vir

5H_04062016_scaffold_1_prodigal-single.1__X__X__00026

Identity

Kingdom:
phage

Quality

90.8 mean pLDDT

3D Structure

Domains

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

D1 high residues 6-58
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ge2A00 2.40.128.50 Mainly Beta › Beta Barrel › Lipocalin › 0.73 52.0 4.39e-01 96.2% 44.9%
4jgwA01 1.20.870.10 Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 0.71 49.0 3.45e-01 71.7% 39.7%
2ea9A01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.68 47.0 3.87e-01 90.6% 40.4%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.66 53.0 4.07e-01 100.0% 39.2%
2nvnA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.65 51.0 3.95e-01 96.2% 38.3%
2h7fX02 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.60 41.0 2.70e-01 71.7% 51.5%
1ti2A01 2.20.25.340 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.59 40.0 3.80e-01 71.7% 98.5%
2xepB01 3.10.450.280 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 47.0 3.63e-01 86.8% 81.6%
1h54A03 2.60.420.10 Mainly Beta › Sandwich › Maltose phosphorylase, domain 3 › Maltose phosphorylase, domain 3 0.59 51.0 4.54e-01 96.2% 91.9%
6htnA01 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.58 47.0 3.51e-01 90.6% 68.6%
4mtsA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.55 38.0 2.95e-01 75.5% 48.8%
3h3hB00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 44.0 3.36e-01 88.7% 95.8%
7q04F01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.54 46.0 3.68e-01 96.2% 89.9%
3jcuO01 2.40.160.30 Mainly Beta › Beta Barrel › Porin › Photosystem II, cytochrome c-550 precursor 0.54 44.0 3.21e-01 98.1% 81.8%
2r5vB02 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.54 41.0 2.91e-01 88.7% 68.2%
2w7qB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.53 46.0 3.22e-01 100.0% 80.6%
1o7dD01 2.70.98.30 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Golgi alpha-mannosidase II; domain 4 0.53 46.0 2.96e-01 100.0% 89.3%
6aqgA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 43.0 3.25e-01 92.5% 68.8%
2xp1A01 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.53 41.0 3.50e-01 100.0% 49.5%
7szeB01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.53 45.0 3.54e-01 94.3% 82.2%
5ih0A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 41.0 3.40e-01 84.9% 100.0%
3kyeA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.53 38.0 3.06e-01 94.3% 35.3%
3lygA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.51 44.0 3.44e-01 100.0% 93.3%
6hoxA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 44.0 2.92e-01 100.0% 31.9%
1ospO02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.51 43.0 3.23e-01 100.0% 47.9%
1tqzA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 42.0 3.21e-01 94.3% 71.5%
3pg1A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.50 40.0 3.00e-01 86.8% 83.7%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.50 41.0 2.50e-01 96.2% 18.8%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
134104 9.1.1.22 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF3642 0.73 52.0 4.39e-01 96.2% 44.9%
3647306 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.64 45.0 2.89e-01 75.5% 50.2%
3816744 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.63 44.0 2.75e-01 73.6% 40.3%
5062942 7089.1.1.0 a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.63 43.0 4.31e-01 71.7% 72.7%
3818723 5.1.8.12 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › putative conserved lipoprotein NT01CX_1156 › FBA_3 0.59 48.0 3.37e-01 90.6% 50.9%
3698579 223.2.1.5 a+b three layers › Profilin-like › profilin-like › profilin-like › Robl_LC7 0.59 42.0 3.34e-01 90.6% 36.4%
3410461 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.58 47.0 2.87e-01 92.5% 31.5%
3969970 243.3.1.3 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin › PepSY 0.58 43.0 3.96e-01 84.9% 98.7%
5055905 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.57 43.0 3.52e-01 88.7% 83.5%
3487050 12.3.1.0 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.56 49.0 3.07e-01 100.0% 88.1%
4017127 5.1.3.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.56 48.0 3.00e-01 94.3% 24.3%
5014198 5.1.4.670 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PF29948 0.56 45.0 2.78e-01 90.6% 27.1%
4991847 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.55 43.0 2.76e-01 86.8% 45.2%
3883146 391.1.1.0 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.55 40.0 4.30e-01 84.9% 93.3%
3799398 241.4.1.1 a+b two layers › Type III secretory system chaperone-like › Hypothetical protein c14orf129, hspc210 › Hypothetical protein c14orf129, hspc210 › GSKIP_dom 0.55 45.0 3.26e-01 94.3% 58.8%
5049007 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.54 41.0 2.70e-01 81.1% 52.6%
4079885 274.1.1.25 a+b two layers › Pili subunits › Pili subunits › Pili subunits › ComGF 0.54 45.0 3.76e-01 94.3% 74.7%
4986443 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.54 42.0 2.68e-01 86.8% 44.8%
3198057 244.4.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit 0.53 42.0 3.89e-01 94.3% 65.8%
3184801 206.1.1.11 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › APH 0.53 42.0 2.52e-01 86.8% 28.1%
5058238 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.53 41.0 2.73e-01 86.8% 50.2%
1384885 214.1.1.6 a+b two layers › SH2 › SH2 › SH2 › SH2_2 0.53 41.0 3.59e-01 100.0% 53.4%
5049111 223.2.1.0 a+b three layers › Profilin-like › profilin-like › profilin-like 0.53 45.0 3.43e-01 96.2% 67.2%
4943980 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.53 42.0 2.74e-01 86.8% 53.3%
3587060 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.52 44.0 3.90e-01 92.5% 100.0%
5011312 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.52 40.0 2.66e-01 83.0% 51.2%
3586827 274.1.1.25 a+b two layers › Pili subunits › Pili subunits › Pili subunits › ComGF 0.52 43.0 3.37e-01 94.3% 59.1%
5035308 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.51 39.0 2.63e-01 83.0% 52.2%
None 0.51 39.0 2.50e-01 84.9% 43.0%
3934170 241.4.1.1 a+b two layers › Type III secretory system chaperone-like › Hypothetical protein c14orf129, hspc210 › Hypothetical protein c14orf129, hspc210 › GSKIP_dom 0.51 45.0 3.72e-01 100.0% 75.8%
3591361 206.1.1.9 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › RIO1 0.51 40.0 2.52e-01 88.7% 88.5%
D2 high residues 67-159
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF26209.2 best Phage_phiTE_241_C 39.0 9.20e-10 90.3% 86.6%
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6o38A04 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.72 61.0 6.21e-01 100.0% 95.5%
6o38A03 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.71 58.0 6.10e-01 94.6% 100.0%
4bxsV03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.69 52.0 3.48e-01 79.6% 40.2%
3kq4B02 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.69 51.0 4.73e-01 78.5% 89.8%
6o38A02 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.68 59.0 6.00e-01 100.0% 100.0%
6o38A01 2.60.120.1230 Mainly Beta › Sandwich › Jelly Rolls › 0.68 60.0 6.08e-01 100.0% 100.0%
6kliA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.67 50.0 3.89e-01 78.5% 85.9%
3zx1A01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.67 54.0 4.48e-01 86.0% 65.6%
4lorA03 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.67 51.0 4.72e-01 81.7% 91.6%
6fzvD01 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.65 52.0 4.84e-01 86.0% 92.4%
3demA03 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.65 50.0 4.74e-01 82.8% 93.9%
4knuA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.65 50.0 4.22e-01 82.8% 76.1%
6v55A01 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.65 48.0 4.56e-01 78.5% 90.2%
6xizA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.65 52.0 4.33e-01 86.0% 64.6%
1hf2A02 2.160.20.70 Mainly Beta › 3 Solenoid › Pectate Lyase C-like › 0.65 51.0 4.91e-01 100.0% 74.5%
4f7kA03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.64 49.0 4.56e-01 79.6% 71.9%
6voxA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.64 47.0 4.48e-01 78.5% 90.2%
1sddB02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.63 47.0 4.32e-01 79.6% 81.6%
5zl1A00 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.63 52.0 3.64e-01 90.3% 38.2%
5ocbA01 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.62 53.0 4.52e-01 94.6% 71.8%
4f2eA00 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.62 50.0 5.00e-01 89.2% 83.7%
3pnrB00 2.60.40.2020 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 47.0 4.26e-01 81.7% 81.4%
6evgA03 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.62 46.0 4.00e-01 79.6% 78.8%
3sqrA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.60 47.0 3.74e-01 83.9% 92.2%
3mteA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 46.0 3.61e-01 93.5% 86.8%
3h2bB00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.54 45.0 3.64e-01 94.6% 76.5%
3kw8A02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.50 36.0 3.27e-01 76.3% 86.5%
ECOD (23)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2581339 520.2.1.1 beta sandwiches › gp9 N-terminal domain-like › beta-sandwich domain in metalloprotease stcE › beta-sandwich domain in metalloprotease stcE › StcE_b-sandwich 0.71 63.0 6.33e-01 100.0% 96.8%
3998876 10.4.1.1 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.69 52.0 4.61e-01 80.6% 91.1%
4981896 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.67 48.0 4.27e-01 75.3% 72.6%
3960404 3156.1.1.0 beta sandwiches › Cupredoxin-like › Cupredoxin-related › Cupredoxin-related 0.67 50.0 4.43e-01 79.6% 83.0%
5027635 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.64 47.0 4.47e-01 76.3% 88.0%
4651440 207.5.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Cell-division inhibitor MinC-C › Cell-division inhibitor MinC-C › MinC_C 0.62 51.0 4.86e-01 100.0% 75.5%
4024284 11.1.1.162 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Inhibitor_I71 0.62 47.0 4.16e-01 81.7% 80.9%
4059116 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.61 54.0 3.92e-01 100.0% 63.6%
3224090 10.4.1.1 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.59 50.0 4.32e-01 97.8% 85.2%
5028349 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.59 51.0 4.69e-01 96.8% 73.3%
4562874 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.59 51.0 3.81e-01 100.0% 60.0%
4994079 4312.1.1.0 a+b two layers › RelE-like › RelE-like › RelE-like 0.58 29.0 3.24e-01 91.4% 57.3%
4041561 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.58 50.0 3.75e-01 100.0% 62.0%
3573761 11.1.1.44 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Alpha_adaptinC2 0.57 46.0 4.08e-01 90.3% 69.7%
4063416 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.57 50.0 4.47e-01 96.8% 70.0%
5056110 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.57 50.0 4.40e-01 96.8% 71.9%
3531882 10.4.1.1 beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.57 47.0 4.43e-01 93.5% 77.4%
4244689 207.11.1.1 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Urease accessory protein ureH › Urease accessory protein ureH › UreD 0.56 48.0 3.59e-01 100.0% 60.8%
5038445 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.56 41.0 4.12e-01 79.6% 78.9%
3740333 7512.1.1.136 a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glycos_transf_1, Glyco_transf_5 0.55 43.0 2.79e-01 87.1% 96.0%
4023675 3156.3.1.0 beta sandwiches › Cupredoxin-like › Surface antigen 1 (SAG1)-related-sequence (SRS) family › Surface antigen 1 (SAG1)-related-sequence (SRS) family 0.54 40.0 3.68e-01 77.4% 80.8%
4940715 274.1.1.0 a+b two layers › Pili subunits › Pili subunits › Pili subunits 0.53 46.0 4.43e-01 97.8% 87.3%
3548304 11.1.1.97 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.52 39.0 3.90e-01 81.7% 84.0%